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	ref_context	gc_content	CCLE_ONCOMAP_overlapping_mutations	CCLE_ONCOMAP_total_mutations_in_gene	CGC_Mutation_Type	CGC_Translocation_Partner	CGC_Tumor_Types_Somatic	CGC_Tumor_Types_Germline	CGC_Other_Diseases	DNARepairGenes_Role	FamilialCancerDatabase_Syndromes	MUTSIG_Published_Results	OREGANNO_ID	OREGANNO_Values	t_alt_count	t_ref_count	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	filter
SAMD11	148398	broad.mit.edu	37	1	866408	866408	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:866408C>T	uc001abw.1	+						SAMD11_uc001abv.1_Intron	NM_152486	NP_689699	Q96NU1	SAM11_HUMAN	sterile alpha motif domain containing 11							nucleus					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;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;1.74e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.93e-23)|Colorectal(212;0.000159)|COAD - Colon adenocarcinoma(227;0.000193)|BRCA - Breast invasive adenocarcinoma(365;0.000472)|Kidney(185;0.0023)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0342)|Lung(427;0.199)		CTTCTGCTTCCCTTCCTGCAG	0.637													14	27	---	---	---	---	PASS
SAMD11	148398	broad.mit.edu	37	1	879424	879424	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:879424C>T	uc001abw.1	+	14	2017	c.1937C>T	c.(1936-1938)TCC>TTC	p.S646F	SAMD11_uc001abx.1_Missense_Mutation_p.S509F	NM_152486	NP_689699	Q96NU1	SAM11_HUMAN	sterile alpha motif domain containing 11	646						nucleus					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;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;1.74e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.93e-23)|Colorectal(212;0.000159)|COAD - Colon adenocarcinoma(227;0.000193)|BRCA - Breast invasive adenocarcinoma(365;0.000472)|Kidney(185;0.0023)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0342)|Lung(427;0.199)		ACGGCCACGTCCCCCTATGGA	0.677													17	28	---	---	---	---	PASS
SAMD11	148398	broad.mit.edu	37	1	879425	879425	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:879425C>T	uc001abw.1	+	14	2018	c.1938C>T	c.(1936-1938)TCC>TCT	p.S646S	SAMD11_uc001abx.1_Silent_p.S509S	NM_152486	NP_689699	Q96NU1	SAM11_HUMAN	sterile alpha motif domain containing 11	646						nucleus					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;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;1.74e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.93e-23)|Colorectal(212;0.000159)|COAD - Colon adenocarcinoma(227;0.000193)|BRCA - Breast invasive adenocarcinoma(365;0.000472)|Kidney(185;0.0023)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0342)|Lung(427;0.199)		CGGCCACGTCCCCCTATGGAG	0.682													17	28	---	---	---	---	PASS
NOC2L	26155	broad.mit.edu	37	1	891504	891504	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:891504G>A	uc001abz.3	-	5	637	c.578C>T	c.(577-579)GCC>GTC	p.A193V	NOC2L_uc001aby.3_5'UTR|NOC2L_uc009vjq.2_Missense_Mutation_p.A193V	NM_015658	NP_056473	Q9Y3T9	NOC2L_HUMAN	nucleolar complex associated 2 homolog	193						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)		GAATTTGTTGGCCTCAGCACT	0.592													20	30	---	---	---	---	PASS
PRKCZ	5590	broad.mit.edu	37	1	2105397	2105397	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:2105397C>T	uc001aiq.2	+	14	1508	c.1347C>T	c.(1345-1347)TCC>TCT	p.S449S	PRKCZ_uc001air.2_Silent_p.S266S|PRKCZ_uc010nyw.1_Silent_p.S345S|PRKCZ_uc001ais.2_Silent_p.S266S|PRKCZ_uc009vla.2_Silent_p.S273S|PRKCZ_uc010nyx.1_RNA|PRKCZ_uc001ait.2_Silent_p.S297S	NM_002744	NP_002735	Q05513	KPCZ_HUMAN	protein kinase C, zeta isoform 1	449	Protein kinase.				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)		CCGGGCGCTCCCCGTTCGACA	0.622											OREG0013007	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	20	---	---	---	---	PASS
MMEL1	79258	broad.mit.edu	37	1	2527475	2527475	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:2527475C>T	uc001ajy.2	-	15	1687	c.1473G>A	c.(1471-1473)GAG>GAA	p.E491E	MMEL1_uc009vlg.1_RNA	NM_033467	NP_258428	Q495T6	MMEL1_HUMAN	membrane metallo-endopeptidase-like 1	491	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)		TCTTGGACTCCTCGTCCATCC	0.627													37	53	---	---	---	---	PASS
ACTRT2	140625	broad.mit.edu	37	1	2938400	2938400	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:2938400G>A	uc001ajz.2	+	1	355	c.150G>A	c.(148-150)GAG>GAA	p.E50E		NM_080431	NP_536356	Q8TDY3	ACTT2_HUMAN	actin-related protein M2	50						cytoplasm|cytoskeleton					0	all_cancers(77;0.00205)|all_epithelial(69;0.0011)|Ovarian(185;0.0634)|Lung NSC(156;0.0893)|all_lung(157;0.0909)	all_epithelial(116;2.66e-20)|all_lung(118;1.56e-08)|Lung NSC(185;2.54e-06)|Breast(487;0.00156)|Renal(390;0.00183)|Hepatocellular(190;0.00826)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|Lung SC(97;0.0847)|Medulloblastoma(700;0.123)		Epithelial(90;7.19e-38)|OV - Ovarian serous cystadenocarcinoma(86;5.15e-22)|GBM - Glioblastoma multiforme(42;1.1e-12)|Colorectal(212;3.98e-05)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.000329)|BRCA - Breast invasive adenocarcinoma(365;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00544)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.125)		CCTCAGCAGAGGCCAACCAGA	0.627													15	15	---	---	---	---	PASS
CCDC27	148870	broad.mit.edu	37	1	3679830	3679830	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:3679830G>A	uc001akv.2	+	7	1194	c.1113G>A	c.(1111-1113)GAG>GAA	p.E371E		NM_152492	NP_689705	Q2M243	CCD27_HUMAN	coiled-coil domain containing 27	371	Glu-rich.									skin(1)	1	all_cancers(77;0.0385)|Ovarian(185;0.0634)|Lung NSC(156;0.21)|all_lung(157;0.218)	all_epithelial(116;5.52e-17)|all_lung(118;1.04e-06)|Lung NSC(185;0.000214)|Renal(390;0.00357)|Breast(487;0.00446)|Hepatocellular(190;0.0218)|Lung SC(97;0.0367)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.127)		Epithelial(90;1.11e-38)|OV - Ovarian serous cystadenocarcinoma(86;1.35e-22)|GBM - Glioblastoma multiforme(42;3.46e-16)|Colorectal(212;1.17e-05)|COAD - Colon adenocarcinoma(227;5.76e-05)|Kidney(185;0.00036)|BRCA - Breast invasive adenocarcinoma(365;0.000696)|KIRC - Kidney renal clear cell carcinoma(229;0.00558)|STAD - Stomach adenocarcinoma(132;0.00645)|Lung(427;0.203)		agggaagcgaggaggaggaag	0.398													4	12	---	---	---	---	PASS
KIAA0562	9731	broad.mit.edu	37	1	3753130	3753130	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:3753130C>T	uc001aky.2	-	10	1605	c.1246G>A	c.(1246-1248)GAG>AAG	p.E416K	KIAA0562_uc010nzm.1_RNA|KIAA0562_uc001akz.2_Missense_Mutation_p.E416K	NM_014704	NP_055519	O60308	CE104_HUMAN	glycine-, glutamate-,	416						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)		GGCTCTGGCTCCCCTAACATG	0.493													8	57	---	---	---	---	PASS
CHD5	26038	broad.mit.edu	37	1	6202664	6202664	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:6202664G>A	uc001amb.1	-	14	2145	c.2045C>T	c.(2044-2046)CCC>CTC	p.P682L	CHD5_uc001ama.1_RNA|CHD5_uc001amc.1_RNA	NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	682					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)		CTTGACCGTGGGCTGCAGGGG	0.512													20	18	---	---	---	---	PASS
CHD5	26038	broad.mit.edu	37	1	6212538	6212538	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:6212538C>T	uc001amb.1	-	6	904	c.804G>A	c.(802-804)GGG>GGA	p.G268G		NM_015557	NP_056372	Q8TDI0	CHD5_HUMAN	chromodomain helicase DNA binding protein 5	268	Lys-rich.				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)		CCGTCTTTTTCCCTTTGCCCT	0.443													13	21	---	---	---	---	PASS
RNF207	388591	broad.mit.edu	37	1	6270508	6270508	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:6270508C>T	uc001amg.2	+						RNF207_uc001amh.2_3'UTR|RNF207_uc010nzp.1_Intron	NM_207396	NP_997279	Q6ZRF8	RN207_HUMAN	ring finger protein 207							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)		TGTGAGTCTCCTCTGCTCCTG	0.637													7	18	---	---	---	---	PASS
PLEKHG5	57449	broad.mit.edu	37	1	6527644	6527644	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:6527644G>A	uc001ano.1	-						PLEKHG5_uc001ann.1_Intron|PLEKHG5_uc001anq.1_Intron|PLEKHG5_uc001anp.1_Intron|TNFRSF25_uc001ana.2_5'Flank|TNFRSF25_uc001anb.2_5'Flank|TNFRSF25_uc001anc.2_5'Flank|TNFRSF25_uc001and.2_5'Flank|TNFRSF25_uc009vlz.2_5'Flank|TNFRSF25_uc001ane.2_5'Flank|TNFRSF25_uc001anf.2_5'Flank|TNFRSF25_uc001ang.2_5'Flank|TNFRSF25_uc001anh.2_5'Flank|TNFRSF25_uc001ani.1_5'Flank|PLEKHG5_uc001anj.1_Intron|PLEKHG5_uc009vma.1_Intron|PLEKHG5_uc010nzr.1_Intron|PLEKHG5_uc001ank.1_Intron|PLEKHG5_uc009vmb.1_Intron|PLEKHG5_uc001anl.1_Intron|PLEKHG5_uc001anm.1_Intron|PLEKHG5_uc001anr.1_3'UTR	NM_001042663	NP_001036128	O94827	PKHG5_HUMAN	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)		TACAGGGTGGGGAGGGGACAG	0.637													14	41	---	---	---	---	PASS
CAMTA1	23261	broad.mit.edu	37	1	7700505	7700505	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:7700505G>A	uc001aoi.2	+	7	763	c.556G>A	c.(556-558)GAG>AAG	p.E186K		NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	186	CG-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)		GCCGGCCATCGAGGACTGCGG	0.612													26	29	---	---	---	---	PASS
CAMTA1	23261	broad.mit.edu	37	1	7724082	7724082	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:7724082C>T	uc001aoi.2	+	9	1682	c.1475C>T	c.(1474-1476)CCA>CTA	p.P492L		NM_015215	NP_056030	Q9Y6Y1	CMTA1_HUMAN	calmodulin-binding transcription activator 1	492					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)		CTTAATAACCCAAAGCAGGGC	0.592													14	36	---	---	---	---	PASS
SLC45A1	50651	broad.mit.edu	37	1	8390257	8390257	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:8390257C>T	uc001apb.2	+						SLC45A1_uc001apc.2_5'UTR	NM_001080397	NP_001073866	Q9Y2W3	S45A1_HUMAN	DNB5						carbohydrate transport	integral to membrane	symporter activity			central_nervous_system(2)|pancreas(1)|skin(1)	4	Ovarian(185;0.0661)|all_lung(157;0.127)	all_epithelial(116;1.22e-15)|all_lung(118;0.000147)|Lung NSC(185;0.000251)|Renal(390;0.000469)|Colorectal(325;0.00578)|Breast(348;0.00686)|Hepatocellular(190;0.0228)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.11)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|all cancers(8;3.95e-66)|GBM - Glioblastoma multiforme(8;5.93e-33)|Colorectal(212;2.86e-07)|COAD - Colon adenocarcinoma(227;3.11e-05)|Kidney(185;5.33e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000513)|KIRC - Kidney renal clear cell carcinoma(229;0.000979)|STAD - Stomach adenocarcinoma(132;0.00199)|READ - Rectum adenocarcinoma(331;0.0649)		CAAACCCTGTCTCTTTCCCCA	0.612													5	40	---	---	---	---	PASS
RERE	473	broad.mit.edu	37	1	8418356	8418356	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:8418356G>A	uc001ape.2	-	21	5049	c.4239C>T	c.(4237-4239)CCC>CCT	p.P1413P	RERE_uc001apf.2_Silent_p.P1413P|RERE_uc001apd.2_Silent_p.P859P	NM_012102	NP_036234	Q9P2R6	RERE_HUMAN	atrophin-1 like protein isoform a	1413					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)		GTCGGGCCAGGGGATCGCTGG	0.453													6	7	---	---	---	---	PASS
SLC25A33	84275	broad.mit.edu	37	1	9642481	9642481	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:9642481C>T	uc001apw.2	+	7	1111	c.888C>T	c.(886-888)ATC>ATT	p.I296I	SLC25A33_uc001apx.2_Silent_p.I229I	NM_032315	NP_115691	Q9BSK2	S2533_HUMAN	mitochondrial carrier protein MGC4399	296	Solcar 3.				transport	integral to membrane|mitochondrial inner membrane					0	all_lung(157;0.246)	all_epithelial(116;1.16e-18)|all_lung(118;2.44e-05)|Lung NSC(185;4.08e-05)|Renal(390;0.000147)|Breast(348;0.00191)|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;6.01e-08)|COAD - Colon adenocarcinoma(227;1.44e-05)|Kidney(185;0.000262)|KIRC - Kidney renal clear cell carcinoma(229;0.000957)|BRCA - Breast invasive adenocarcinoma(304;0.0019)|STAD - Stomach adenocarcinoma(132;0.00355)|READ - Rectum adenocarcinoma(331;0.0419)		CCCAGCTTATCCGGCAGATCC	0.478													11	17	---	---	---	---	PASS
CLSTN1	22883	broad.mit.edu	37	1	9804666	9804666	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:9804666G>A	uc001aqh.2	-	8	1780	c.1021C>T	c.(1021-1023)CCG>TCG	p.P341S	CLSTN1_uc001aqi.2_Missense_Mutation_p.P331S|CLSTN1_uc010oag.1_Missense_Mutation_p.P341S	NM_001009566	NP_001009566	O94985	CSTN1_HUMAN	calsyntenin 1 isoform 1	341	Extracellular (Potential).				homophilic cell adhesion	cell junction|cell projection|endoplasmic reticulum membrane|Golgi membrane|integral to membrane|nucleus|postsynaptic membrane	calcium ion binding			skin(1)	1	all_lung(157;0.222)	all_lung(284;4.03e-05)|Lung NSC(185;6.93e-05)|Renal(390;0.000147)|Colorectal(325;0.00205)|Breast(348;0.00314)|Hepatocellular(190;0.00825)|Ovarian(437;0.0228)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0234)|Colorectal(212;8.36e-08)|COAD - Colon adenocarcinoma(227;1.93e-05)|Kidney(185;0.000342)|BRCA - Breast invasive adenocarcinoma(304;0.000949)|KIRC - Kidney renal clear cell carcinoma(229;0.00122)|STAD - Stomach adenocarcinoma(132;0.00644)|READ - Rectum adenocarcinoma(331;0.0419)		GATCCACTCGGGGATGGCAGC	0.652													6	6	---	---	---	---	PASS
KIF1B	23095	broad.mit.edu	37	1	10364096	10364096	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:10364096C>T	uc001aqx.3	+						KIF1B_uc001aqv.3_Silent_p.I951I|KIF1B_uc001aqw.3_Intron|KIF1B_uc001aqy.2_Intron|KIF1B_uc001aqz.2_Intron|KIF1B_uc001ara.2_Intron|KIF1B_uc001arb.2_Intron	NM_015074	NP_055889	O60333	KIF1B_HUMAN	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)		ATAGGTTCATCCCTCCTGAGA	0.488													27	64	---	---	---	---	PASS
KIF1B	23095	broad.mit.edu	37	1	10384043	10384043	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:10384043C>T	uc001aqx.3	+	25	2662	c.2460C>T	c.(2458-2460)TTC>TTT	p.F820F	KIF1B_uc001aqw.3_Silent_p.F774F|KIF1B_uc001aqy.2_Silent_p.F794F|KIF1B_uc001aqz.2_Silent_p.F820F|KIF1B_uc001ara.2_Silent_p.F780F|KIF1B_uc001arb.2_Silent_p.F806F	NM_015074	NP_055889	O60333	KIF1B_HUMAN	kinesin family member 1B isoform b	820					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)		ACAGGCCTTTCCCTCGCACAG	0.443													33	41	---	---	---	---	PASS
PEX14	5195	broad.mit.edu	37	1	10684392	10684392	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:10684392C>T	uc001arn.2	+						PEX14_uc009vmv.2_Intron|PEX14_uc010oam.1_Intron|PEX14_uc010oan.1_Intron|PEX14_uc009vmw.2_Intron	NM_004565	NP_004556	O75381	PEX14_HUMAN	peroxisomal biogenesis factor 14						negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription, DNA-dependent|protein homooligomerization|protein import into peroxisome matrix|transmembrane transport	integral to membrane|nucleus|peroxisomal membrane|protein complex	protein N-terminus binding|transcription corepressor activity			breast(1)	1	Ovarian(185;0.203)	all_lung(284;6.02e-06)|Lung NSC(185;9.62e-06)|Renal(390;0.000147)|Breast(348;0.000932)|Colorectal(325;0.00215)|Hepatocellular(190;0.00913)|Ovarian(437;0.023)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0292)|Colorectal(212;9.13e-08)|COAD - Colon adenocarcinoma(227;2.07e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000482)|Kidney(185;0.00174)|KIRC - Kidney renal clear cell carcinoma(229;0.00457)|STAD - Stomach adenocarcinoma(132;0.0249)|READ - Rectum adenocarcinoma(331;0.0419)		GCTTTCTCCTCGCAGTGACTC	0.617													16	60	---	---	---	---	PASS
PTCHD2	57540	broad.mit.edu	37	1	11561098	11561098	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:11561098G>A	uc001ash.3	+	2	187	c.49G>A	c.(49-51)GAG>AAG	p.E17K	PTCHD2_uc001asi.1_Missense_Mutation_p.E17K	NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	17	Cytoplasmic (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)		GCTAGAGGAGGAGCAGGAGGA	0.617													9	19	---	---	---	---	PASS
PTCHD2	57540	broad.mit.edu	37	1	11584057	11584057	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:11584057G>A	uc001ash.3	+	11	2559	c.2421G>A	c.(2419-2421)AAG>AAA	p.K807K	PTCHD2_uc001asi.1_Silent_p.K807K	NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	807	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)		CCCTGGAGAAGAAGAGGCGAG	0.657													6	16	---	---	---	---	PASS
PTCHD2	57540	broad.mit.edu	37	1	11595632	11595632	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:11595632G>A	uc001ash.3	+	20	3885	c.3747G>A	c.(3745-3747)GTG>GTA	p.V1249V		NM_020780	NP_065831	Q9P2K9	PTHD2_HUMAN	patched domain containing 2	1249	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)		GCTCCTCCGTGGATTACTGCG	0.652													4	36	---	---	---	---	PASS
CLCN6	1185	broad.mit.edu	37	1	11887136	11887136	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:11887136C>T	uc001ate.3	+						CLCN6_uc009vnf.1_Intron|CLCN6_uc009vng.1_Intron|CLCN6_uc009vnh.1_Intron|CLCN6_uc010oat.1_Intron|CLCN6_uc010oau.1_Intron	NM_001286	NP_001277	P51797	CLCN6_HUMAN	chloride channel 6 isoform ClC-6a						cell volume homeostasis|signal transduction	endosome membrane|integral to membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity				0	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;6.13e-06)|COAD - Colon adenocarcinoma(227;0.000274)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.000816)|KIRC - Kidney renal clear cell carcinoma(229;0.00268)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)		CGTCTCTCTCCTCTCCTCAGA	0.512													7	5	---	---	---	---	PASS
CLCN6	1185	broad.mit.edu	37	1	11887200	11887200	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:11887200C>T	uc001ate.3	+	10	875	c.762C>T	c.(760-762)TTC>TTT	p.F254F	CLCN6_uc009vnf.1_Missense_Mutation_p.R258W|CLCN6_uc009vng.1_Missense_Mutation_p.R246W|CLCN6_uc009vnh.1_Silent_p.F254F|CLCN6_uc010oat.1_5'UTR|CLCN6_uc010oau.1_Silent_p.F232F	NM_001286	NP_001277	P51797	CLCN6_HUMAN	chloride channel 6 isoform ClC-6a	254					cell volume homeostasis|signal transduction	endosome membrane|integral to membrane	antiporter activity|ATP binding|voltage-gated chloride channel activity				0	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;6.13e-06)|COAD - Colon adenocarcinoma(227;0.000274)|BRCA - Breast invasive adenocarcinoma(304;0.000311)|Kidney(185;0.000816)|KIRC - Kidney renal clear cell carcinoma(229;0.00268)|STAD - Stomach adenocarcinoma(313;0.00743)|READ - Rectum adenocarcinoma(331;0.0649)		CTGCAGCTTTCGGGGCGCCAA	0.557													5	12	---	---	---	---	PASS
PLOD1	5351	broad.mit.edu	37	1	12024743	12024743	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:12024743C>T	uc001atm.2	+	13	1462	c.1371C>T	c.(1369-1371)ATC>ATT	p.I457I	PLOD1_uc010obb.1_Silent_p.I504I	NM_000302	NP_000293	Q02809	PLOD1_HUMAN	lysyl hydroxylase 1 precursor	457					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)	TCTACTTGATCAAGGGCAGTG	0.582													30	33	---	---	---	---	PASS
VPS13D	55187	broad.mit.edu	37	1	12403072	12403072	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:12403072C>T	uc001atv.2	+	42	8990	c.8849C>T	c.(8848-8850)CCC>CTC	p.P2950L	VPS13D_uc001atw.2_Missense_Mutation_p.P2925L|VPS13D_uc001atx.2_Missense_Mutation_p.P2137L	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	vacuolar protein sorting 13D isoform 1	2949					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)		GAAGAGATTCCCTTTGAATTT	0.408													12	26	---	---	---	---	PASS
VPS13D	55187	broad.mit.edu	37	1	12475130	12475130	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:12475130C>T	uc001atv.2	+						VPS13D_uc001atw.2_Intron|VPS13D_uc001atx.2_Intron|VPS13D_uc009vnl.2_Intron|VPS13D_uc010obd.1_Intron	NM_015378	NP_056193	Q5THJ4	VP13D_HUMAN	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)		TTCCTTTCTTCCCTAATTAGG	0.388													4	20	---	---	---	---	PASS
LOC649330	649330	broad.mit.edu	37	1	12907391	12907391	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:12907391C>T	uc009vno.2	-	1	847	c.752G>A	c.(751-753)GGG>GAG	p.G251E	HNRNPCL1_uc010obf.1_Missense_Mutation_p.G251E	NM_001146181	NP_001139653	B7ZW38	B7ZW38_HUMAN	heterogeneous nuclear ribonucleoprotein C-like	251							nucleic acid binding|nucleotide binding				0						CAGTGGGTCCCCCTCCTCAGC	0.502													26	33	---	---	---	---	PASS
KAZ	23254	broad.mit.edu	37	1	15428226	15428226	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:15428226C>T	uc001avm.3	+	11	2016	c.1735C>T	c.(1735-1737)CTG>TTG	p.L579L	KAZ_uc001avs.3_Silent_p.L26L	NM_201628	NP_963922	Q674X7	KAZRN_HUMAN	kazrin isoform E	579	SAM 2.				keratinization	cornified envelope|cytoplasm|desmosome|nucleus					0						GGTCAGCATCCTGCTGGGGAT	0.592													6	4	---	---	---	---	PASS
TMEM51	55092	broad.mit.edu	37	1	15546138	15546138	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:15546138C>T	uc001avw.3	+	4	1180	c.661C>T	c.(661-663)CCA>TCA	p.P221S	TMEM51_uc010obk.1_Missense_Mutation_p.P221S|TMEM51_uc001avz.2_3'UTR|TMEM51_uc001avy.2_Missense_Mutation_p.P221S|TMEM51_uc001avx.2_Missense_Mutation_p.P221S	NM_001136216	NP_001129688	Q9NW97	TMM51_HUMAN	transmembrane protein 51	221						integral to membrane					0		Renal(390;0.00145)|Breast(348;0.00186)|Colorectal(325;0.00215)|all_lung(284;0.00459)|Lung NSC(340;0.0104)|Myeloproliferative disorder(586;0.0393)|Hepatocellular(190;0.0623)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0265)|Colorectal(212;2.07e-06)|COAD - Colon adenocarcinoma(227;7.14e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000175)|KIRC - Kidney renal clear cell carcinoma(229;0.00141)|STAD - Stomach adenocarcinoma(313;0.00644)|READ - Rectum adenocarcinoma(331;0.0751)		GATCAACCTCCCAGACAAAAA	0.522													30	39	---	---	---	---	PASS
RSC1A1	6248	broad.mit.edu	37	1	15987280	15987280	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:15987280C>T	uc010obn.1	+	1	917	c.917C>T	c.(916-918)TCC>TTC	p.S306F		NM_006511	NP_006502	Q92681	RSCA1_HUMAN	regulatory solute carrier protein, family 1,	306					negative regulation of transport|regulation of transcription, DNA-dependent|transcription, DNA-dependent|transport	cell junction|Golgi apparatus|nucleus	ion channel inhibitor activity			ovary(1)	1		Colorectal(325;0.00108)|Renal(390;0.00145)|Breast(348;0.00276)|Lung NSC(340;0.00566)|all_lung(284;0.00831)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.73e-07)|COAD - Colon adenocarcinoma(227;3.49e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000114)|KIRC - Kidney renal clear cell carcinoma(229;0.00244)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GATTCCATTTCCACTCAGGAT	0.383													17	23	---	---	---	---	PASS
TMEM82	388595	broad.mit.edu	37	1	16074105	16074105	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16074105C>T	uc001axc.2	+	6	1148	c.1010C>T	c.(1009-1011)TCC>TTC	p.S337F		NM_001013641	NP_001013663	A0PJX8	TMM82_HUMAN	transmembrane protein 82	337						integral to membrane				breast(1)|central_nervous_system(1)	2		Colorectal(325;0.00108)|Renal(390;0.00145)|Breast(348;0.00224)|Lung NSC(340;0.00566)|all_lung(284;0.00831)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0798)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|Colorectal(212;5.73e-07)|COAD - Colon adenocarcinoma(227;3.49e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000114)|KIRC - Kidney renal clear cell carcinoma(229;0.00244)|STAD - Stomach adenocarcinoma(313;0.0072)|READ - Rectum adenocarcinoma(331;0.0649)		GCACCCCAGTCCCAGAGTTCG	0.602													9	31	---	---	---	---	PASS
SPEN	23013	broad.mit.edu	37	1	16261660	16261660	+	Silent	SNP	G	A	A	rs150393064		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16261660G>A	uc001axk.1	+	11	9129	c.8925G>A	c.(8923-8925)CCG>CCA	p.P2975P	SPEN_uc010obp.1_Silent_p.P2934P	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	2975					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)		TCCTTCAGCCGGCCAACCTGG	0.597													6	25	---	---	---	---	PASS
SPEN	23013	broad.mit.edu	37	1	16261661	16261661	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16261661G>A	uc001axk.1	+	11	9130	c.8926G>A	c.(8926-8928)GCC>ACC	p.A2976T	SPEN_uc010obp.1_Missense_Mutation_p.A2935T	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	2976					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)		CCTTCAGCCGGCCAACCTGGG	0.602													6	23	---	---	---	---	PASS
SPEN	23013	broad.mit.edu	37	1	16261936	16261936	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16261936C>T	uc001axk.1	+	11	9405	c.9201C>T	c.(9199-9201)TTC>TTT	p.F3067F	SPEN_uc010obp.1_Silent_p.F3026F	NM_015001	NP_055816	Q96T58	MINT_HUMAN	spen homolog, transcriptional regulator	3067					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)		TGCCCCAGTTCATCTCCAGCA	0.607													8	32	---	---	---	---	PASS
EPHA2	1969	broad.mit.edu	37	1	16456870	16456870	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16456870C>T	uc001aya.1	-	15	2657	c.2520G>A	c.(2518-2520)ATG>ATA	p.M840I		NM_004431	NP_004422	P29317	EPHA2_HUMAN	ephrin receptor EphA2 precursor	840	Mediates interaction with ARHGEF16 and ELMO2.|Protein kinase.|Cytoplasmic (Potential).				activation of Rac GTPase activity|angiogenesis|apoptosis|cell chemotaxis|negative regulation of protein kinase B signaling cascade|positive regulation of establishment of protein localization in plasma membrane|protein kinase B signaling cascade|regulation of blood vessel endothelial cell migration|regulation of cell adhesion mediated by integrin|regulation of lamellipodium assembly|response to growth factor stimulus	focal adhesion|integral to plasma membrane|lamellipodium membrane|ruffle membrane	ATP binding|ephrin receptor activity|protein binding			lung(3)|central_nervous_system(3)|stomach(2)|ovary(2)	10		Colorectal(325;3.46e-05)|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;0.0181)|Colorectal(212;3.63e-07)|COAD - Colon adenocarcinoma(227;2.25e-05)|BRCA - Breast invasive adenocarcinoma(304;9.58e-05)|Kidney(64;0.000175)|KIRC - Kidney renal clear cell carcinoma(64;0.00261)|STAD - Stomach adenocarcinoma(313;0.00669)|READ - Rectum adenocarcinoma(331;0.0649)	Dasatinib(DB01254)	AGGGGCAGTCCATGGGTGTGG	0.622													7	7	---	---	---	---	PASS
FBXO42	54455	broad.mit.edu	37	1	16577480	16577480	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16577480G>A	uc001ayg.2	-	10	2055	c.1839C>T	c.(1837-1839)TCC>TCT	p.S613S	FBXO42_uc001aye.3_Silent_p.S331S|FBXO42_uc001ayf.2_Silent_p.S520S	NM_018994	NP_061867	Q6P3S6	FBX42_HUMAN	F-box protein 42	613										upper_aerodigestive_tract(1)|skin(1)	2		Colorectal(325;0.000147)|Renal(390;0.00145)|Breast(348;0.00224)|Lung NSC(340;0.00475)|all_lung(284;0.00671)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0646)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0193)|Colorectal(212;3.16e-07)|COAD - Colon adenocarcinoma(227;1.46e-05)|BRCA - Breast invasive adenocarcinoma(304;4.37e-05)|Kidney(64;0.000246)|KIRC - Kidney renal clear cell carcinoma(64;0.00336)|STAD - Stomach adenocarcinoma(313;0.0139)|READ - Rectum adenocarcinoma(331;0.0693)		TGGGAGGTAAGGAATGTCCAT	0.577													8	55	---	---	---	---	PASS
NBPF1	55672	broad.mit.edu	37	1	16895700	16895700	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16895700G>A	uc009vos.1	-	23	3370	c.2482C>T	c.(2482-2484)CCC>TCC	p.P828S	NBPF1_uc009vot.1_Missense_Mutation_p.P286S|NBPF1_uc001ayz.1_Missense_Mutation_p.P286S|NBPF1_uc010oce.1_Missense_Mutation_p.P557S	NM_017940	NP_060410	Q3BBV0	NBPF1_HUMAN	hypothetical protein LOC55672	828	NBPF 4.					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)		GACTCCTGGGGGACTTCCTCC	0.478													14	148	---	---	---	---	PASS
CROCC	9696	broad.mit.edu	37	1	17257888	17257888	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:17257888G>A	uc001azt.2	+	8	1021	c.952G>A	c.(952-954)GAG>AAG	p.E318K	CROCC_uc009voy.1_Intron|CROCC_uc009voz.1_Missense_Mutation_p.E81K	NM_014675	NP_055490	Q5TZA2	CROCC_HUMAN	ciliary rootlet coiled-coil	318	Potential.				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)		GATGTTCACTGAGAGGTGAGG	0.587													7	16	---	---	---	---	PASS
PADI2	11240	broad.mit.edu	37	1	17402328	17402328	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:17402328G>A	uc001baf.2	-						PADI2_uc010ocm.1_Intron	NM_007365	NP_031391	Q9Y2J8	PADI2_HUMAN	peptidyl arginine deiminase, type II						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)	CCTGGAGAAGGGAGGAAGAGG	0.602											OREG0013145	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	48	---	---	---	---	PASS
PADI6	353238	broad.mit.edu	37	1	17720463	17720463	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:17720463C>T	uc001bak.1	+							NM_207421	NP_997304	Q6TGC4	PADI6_HUMAN	peptidylarginine deiminase type 6						peptidyl-citrulline biosynthetic process from peptidyl-arginine	cytoplasm|nucleus	calcium ion binding|protein-arginine deiminase activity			breast(1)	1		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;7.59e-06)|COAD - Colon adenocarcinoma(227;1.18e-05)|Kidney(64;0.000186)|KIRC - Kidney renal clear cell carcinoma(64;0.00272)|STAD - Stomach adenocarcinoma(196;0.0134)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.189)	L-Citrulline(DB00155)	TCTTCCTCTCCATTCCAGGAT	0.468													19	32	---	---	---	---	PASS
IGSF21	84966	broad.mit.edu	37	1	18661419	18661419	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:18661419C>T	uc001bau.1	+	4	722	c.339C>T	c.(337-339)CCC>CCT	p.P113P		NM_032880	NP_116269	Q96ID5	IGS21_HUMAN	immunoglobin superfamily, member 21 precursor	113	Ig-like 1.					extracellular region				ovary(2)|large_intestine(1)|skin(1)	4		Colorectal(325;0.000147)|Renal(390;0.00145)|all_lung(284;0.00366)|Lung NSC(340;0.00376)|Breast(348;0.00387)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0121)|BRCA - Breast invasive adenocarcinoma(304;5.52e-05)|Kidney(64;0.00103)|KIRC - Kidney renal clear cell carcinoma(64;0.0102)|STAD - Stomach adenocarcinoma(196;0.0118)|READ - Rectum adenocarcinoma(331;0.157)		ACAATGGTCCCTATGAGTGCC	0.617													7	24	---	---	---	---	PASS
IGSF21	84966	broad.mit.edu	37	1	18691905	18691905	+	Silent	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:18691905G>T	uc001bau.1	+	6	1112	c.729G>T	c.(727-729)ACG>ACT	p.T243T	IGSF21_uc001bav.1_Silent_p.T64T	NM_032880	NP_116269	Q96ID5	IGS21_HUMAN	immunoglobin superfamily, member 21 precursor	243						extracellular region				ovary(2)|large_intestine(1)|skin(1)	4		Colorectal(325;0.000147)|Renal(390;0.00145)|all_lung(284;0.00366)|Lung NSC(340;0.00376)|Breast(348;0.00387)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0121)|BRCA - Breast invasive adenocarcinoma(304;5.52e-05)|Kidney(64;0.00103)|KIRC - Kidney renal clear cell carcinoma(64;0.0102)|STAD - Stomach adenocarcinoma(196;0.0118)|READ - Rectum adenocarcinoma(331;0.157)		GACCCTACACGGAGCGCCCCT	0.637													18	43	---	---	---	---	PASS
IGSF21	84966	broad.mit.edu	37	1	18692001	18692001	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:18692001C>T	uc001bau.1	+	6	1208	c.825C>T	c.(823-825)CCC>CCT	p.P275P	IGSF21_uc001bav.1_Silent_p.P96P	NM_032880	NP_116269	Q96ID5	IGS21_HUMAN	immunoglobin superfamily, member 21 precursor	275						extracellular region				ovary(2)|large_intestine(1)|skin(1)	4		Colorectal(325;0.000147)|Renal(390;0.00145)|all_lung(284;0.00366)|Lung NSC(340;0.00376)|Breast(348;0.00387)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0121)|BRCA - Breast invasive adenocarcinoma(304;5.52e-05)|Kidney(64;0.00103)|KIRC - Kidney renal clear cell carcinoma(64;0.0102)|STAD - Stomach adenocarcinoma(196;0.0118)|READ - Rectum adenocarcinoma(331;0.157)		GTGAGTTTCCCCGCTGGGTCC	0.657													16	54	---	---	---	---	PASS
TMCO4	255104	broad.mit.edu	37	1	20009544	20009544	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:20009544C>T	uc001bcn.2	-	16	2136	c.1894G>A	c.(1894-1896)GGG>AGG	p.G632R	TMCO4_uc001bcm.2_Missense_Mutation_p.G463R|TMCO4_uc001bco.1_Intron|TMCO4_uc001bcp.1_Intron	NM_181719	NP_859070	Q5TGY1	TMCO4_HUMAN	transmembrane and coiled-coil domains 4	632						integral to membrane					0		Colorectal(325;0.000147)|Renal(390;0.000469)|all_lung(284;0.00519)|Breast(348;0.00526)|Lung NSC(340;0.00544)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0439)		UCEC - Uterine corpus endometrioid carcinoma (279;0.00708)|COAD - Colon adenocarcinoma(152;2.28e-05)|BRCA - Breast invasive adenocarcinoma(304;5.8e-05)|Kidney(64;0.000367)|GBM - Glioblastoma multiforme(114;0.000377)|KIRC - Kidney renal clear cell carcinoma(64;0.00459)|STAD - Stomach adenocarcinoma(196;0.0072)|READ - Rectum adenocarcinoma(331;0.0862)|Lung(427;0.223)		CAGTCCAGCCCCGTGCTGGGG	0.642													20	26	---	---	---	---	PASS
PINK1	65018	broad.mit.edu	37	1	20970992	20970992	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:20970992G>A	uc001bdm.2	+	4	880	c.786G>A	c.(784-786)AAG>AAA	p.K262K		NM_032409	NP_115785	Q9BXM7	PINK1_HUMAN	PTEN induced putative kinase 1 precursor	262	Protein kinase.|Cytoplasmic (Potential).				cell death|intracellular protein kinase cascade|mitochondrion degradation|peptidyl-serine phosphorylation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of release of cytochrome c from mitochondria|regulation of protein complex assembly|regulation of protein ubiquitination|response to stress	cytosol|integral to membrane|mitochondrial outer membrane	ATP binding|C3HC4-type RING finger domain binding|calcium-dependent protein kinase activity|magnesium ion binding|protein serine/threonine kinase activity|ubiquitin protein ligase binding			ovary(2)|central_nervous_system(1)	3		all_lung(284;2.72e-05)|Lung NSC(340;2.94e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000147)|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;1.21e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000146)|Kidney(64;0.000182)|GBM - Glioblastoma multiforme(114;0.000497)|KIRC - Kidney renal clear cell carcinoma(64;0.00269)|STAD - Stomach adenocarcinoma(196;0.00308)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		GAAAATCCAAGAGAGGTCCCA	0.552													22	69	---	---	---	---	PASS
KIF17	57576	broad.mit.edu	37	1	21014322	21014322	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:21014322C>T	uc001bdr.3	-	8	1615	c.1497G>A	c.(1495-1497)AAG>AAA	p.K499K	KIF17_uc001bdp.3_5'Flank|KIF17_uc001bdq.3_5'Flank|KIF17_uc009vpx.2_Intron|KIF17_uc001bds.3_Silent_p.K499K	NM_020816	NP_065867	Q9P2E2	KIF17_HUMAN	kinesin family member 17 isoform a	499					microtubule-based movement|protein transport	cytoplasm|microtubule	ATP binding			ovary(3)|skin(1)	4		all_lung(284;2.99e-05)|Lung NSC(340;3.26e-05)|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;0.0185)|COAD - Colon adenocarcinoma(152;1.43e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000168)|Kidney(64;0.000221)|GBM - Glioblastoma multiforme(114;0.000651)|KIRC - Kidney renal clear cell carcinoma(64;0.0031)|STAD - Stomach adenocarcinoma(196;0.00336)|READ - Rectum adenocarcinoma(331;0.0686)|Lung(427;0.209)		TGGAGAAGACCTTGGGTTTCA	0.557													30	47	---	---	---	---	PASS
ALPL	249	broad.mit.edu	37	1	21889736	21889736	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:21889736G>A	uc001bet.2	+	5	688	c.431G>A	c.(430-432)GGG>GAG	p.G144E	ALPL_uc010odn.1_Missense_Mutation_p.G92E|ALPL_uc010odo.1_Missense_Mutation_p.G89E|ALPL_uc010odp.1_Missense_Mutation_p.G67E|ALPL_uc001beu.3_Missense_Mutation_p.G144E	NM_000478	NP_000469	P05186	PPBT_HUMAN	tissue-nonspecific alkaline phosphatase	144					response to vitamin D|skeletal system development	anchored to membrane|cytoplasm|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5		all_lung(284;2.19e-05)|Lung NSC(340;2.22e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0192)|OV - Ovarian serous cystadenocarcinoma(117;8.7e-28)|COAD - Colon adenocarcinoma(152;1.57e-05)|GBM - Glioblastoma multiforme(114;2.66e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000177)|STAD - Stomach adenocarcinoma(196;0.00645)|KIRC - Kidney renal clear cell carcinoma(1967;0.00856)|READ - Rectum adenocarcinoma(331;0.0623)|Lung(427;0.146)	Amifostine(DB01143)	ACCACCCAGGGGAACGAGGTC	0.572													9	34	---	---	---	---	PASS
ALPL	249	broad.mit.edu	37	1	21889737	21889737	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:21889737G>A	uc001bet.2	+	5	689	c.432G>A	c.(430-432)GGG>GGA	p.G144G	ALPL_uc010odn.1_Silent_p.G92G|ALPL_uc010odo.1_Silent_p.G89G|ALPL_uc010odp.1_Silent_p.G67G|ALPL_uc001beu.3_Silent_p.G144G	NM_000478	NP_000469	P05186	PPBT_HUMAN	tissue-nonspecific alkaline phosphatase	144					response to vitamin D|skeletal system development	anchored to membrane|cytoplasm|integral to membrane|plasma membrane	alkaline phosphatase activity|metal ion binding			ovary(2)|central_nervous_system(2)|skin(1)	5		all_lung(284;2.19e-05)|Lung NSC(340;2.22e-05)|Colorectal(325;3.46e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0192)|OV - Ovarian serous cystadenocarcinoma(117;8.7e-28)|COAD - Colon adenocarcinoma(152;1.57e-05)|GBM - Glioblastoma multiforme(114;2.66e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000177)|STAD - Stomach adenocarcinoma(196;0.00645)|KIRC - Kidney renal clear cell carcinoma(1967;0.00856)|READ - Rectum adenocarcinoma(331;0.0623)|Lung(427;0.146)	Amifostine(DB01143)	CCACCCAGGGGAACGAGGTCA	0.567													10	34	---	---	---	---	PASS
HSPG2	3339	broad.mit.edu	37	1	22173099	22173099	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:22173099G>A	uc001bfj.2	-						HSPG2_uc009vqd.2_Intron	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor						angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	GGGGCTGGGGGAACAGAGATC	0.577													10	19	---	---	---	---	PASS
HSPG2	3339	broad.mit.edu	37	1	22179315	22179315	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:22179315G>A	uc001bfj.2	-	52	6642	c.6602C>T	c.(6601-6603)TCG>TTG	p.S2201L	HSPG2_uc009vqd.2_Missense_Mutation_p.S2202L	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor	2201	Ig-like C2-type 7.				angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	CCGCAGCAGCGAGCCGTGGGT	0.682													4	14	---	---	---	---	PASS
HSPG2	3339	broad.mit.edu	37	1	22202906	22202906	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:22202906G>A	uc001bfj.2	-						HSPG2_uc009vqd.2_Intron	NM_005529	NP_005520	P98160	PGBM_HUMAN	heparan sulfate proteoglycan 2 precursor						angiogenesis|cell adhesion|lipid metabolic process|lipoprotein metabolic process	basement membrane|extracellular space|plasma membrane	protein C-terminus binding			ovary(5)|large_intestine(2)|central_nervous_system(1)|skin(1)	9		Colorectal(325;3.46e-05)|all_lung(284;7.93e-05)|Lung NSC(340;8.71e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0498)|OV - Ovarian serous cystadenocarcinoma(117;1.14e-26)|Colorectal(126;4.18e-07)|COAD - Colon adenocarcinoma(152;1.82e-05)|GBM - Glioblastoma multiforme(114;3.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000756)|STAD - Stomach adenocarcinoma(196;0.00656)|KIRC - Kidney renal clear cell carcinoma(1967;0.00942)|READ - Rectum adenocarcinoma(331;0.0721)|Lung(427;0.223)	Becaplermin(DB00102)|Palifermin(DB00039)	CAACTGGGAGGAGGAGAAAGG	0.677													6	10	---	---	---	---	PASS
EPHA8	2046	broad.mit.edu	37	1	22924242	22924242	+	Silent	SNP	C	T	T	rs145768889		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:22924242C>T	uc001bfx.1	+	11	2129	c.2004C>T	c.(2002-2004)GCC>GCT	p.A668A		NM_020526	NP_065387	P29322	EPHA8_HUMAN	ephrin receptor EphA8 isoform 1 precursor	668	Cytoplasmic (Potential).|Protein kinase.					integral to plasma membrane	ATP binding|ephrin receptor activity			central_nervous_system(5)|breast(3)|lung(2)|large_intestine(1)|stomach(1)|skin(1)	13		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00222)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.29e-27)|Colorectal(126;1.61e-07)|COAD - Colon adenocarcinoma(152;1.14e-05)|GBM - Glioblastoma multiforme(114;1.74e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000554)|KIRC - Kidney renal clear cell carcinoma(1967;0.00272)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		CCATCAAGGCCCTCAAAGCCG	0.662													17	23	---	---	---	---	PASS
C1QA	712	broad.mit.edu	37	1	22965797	22965797	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:22965797G>A	uc001bfy.2	+	3	720	c.635G>A	c.(634-636)GGT>GAT	p.G212D	C1QA_uc001bfz.2_Missense_Mutation_p.G212D	NM_015991	NP_057075	P02745	C1QA_HUMAN	complement component 1, q subcomponent, A chain	212	C1q.				cell-cell signaling|complement activation, classical pathway|innate immune response	collagen|complement component C1 complex					0		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;6.41e-27)|Colorectal(126;1.52e-07)|COAD - Colon adenocarcinoma(152;1.12e-05)|GBM - Glioblastoma multiforme(114;1.63e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000541)|KIRC - Kidney renal clear cell carcinoma(1967;0.00269)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.197)	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)	CTGCAGCAGGGTGACCAGGTC	0.597													8	37	---	---	---	---	PASS
C1QB	713	broad.mit.edu	37	1	22987772	22987772	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:22987772G>A	uc001bgd.2	+	3	787	c.655G>A	c.(655-657)GGG>AGG	p.G219R		NM_000491	NP_000482	P02746	C1QB_HUMAN	complement component 1, q subcomponent, B chain	219	C1q.				complement activation, classical pathway|innate immune response	collagen|complement component C1 complex				breast(1)	1		Colorectal(325;3.46e-05)|Lung NSC(340;6.55e-05)|all_lung(284;9.87e-05)|Renal(390;0.000219)|Breast(348;0.00262)|Ovarian(437;0.00308)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0227)|OV - Ovarian serous cystadenocarcinoma(117;7.06e-27)|Colorectal(126;1.58e-07)|GBM - Glioblastoma multiforme(114;6.72e-06)|COAD - Colon adenocarcinoma(152;1.13e-05)|BRCA - Breast invasive adenocarcinoma(304;0.000551)|KIRC - Kidney renal clear cell carcinoma(1967;0.0027)|STAD - Stomach adenocarcinoma(196;0.00644)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.198)	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)	GCTGGAGCAGGGGGAGAACGT	0.582													21	27	---	---	---	---	PASS
EPHB2	2048	broad.mit.edu	37	1	23107970	23107970	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:23107970C>T	uc009vqj.1	+	2	263	c.118C>T	c.(118-120)CCA>TCA	p.P40S	EPHB2_uc001bge.2_Missense_Mutation_p.P40S|EPHB2_uc001bgf.2_Missense_Mutation_p.P40S|EPHB2_uc010odu.1_Missense_Mutation_p.P40S	NM_017449	NP_059145	P29323	EPHB2_HUMAN	ephrin receptor EphB2 isoform 1 precursor	40	Extracellular (Potential).				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)		GGTGCATCCTCCATCAGGGGT	0.597									Hereditary_Prostate_Cancer				16	15	---	---	---	---	PASS
EPHB2	2048	broad.mit.edu	37	1	23191717	23191717	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:23191717C>T	uc009vqj.1	+						EPHB2_uc001bge.2_Intron|EPHB2_uc001bgf.2_Intron|EPHB2_uc010odu.1_Intron|hsa-mir-4253|MI0015860_5'Flank	NM_017449	NP_059145	P29323	EPHB2_HUMAN	ephrin receptor EphB2 isoform 1 precursor						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)		TAAGTGCTTCCGACGTGGGCC	0.567									Hereditary_Prostate_Cancer				18	29	---	---	---	---	PASS
ASAP3	55616	broad.mit.edu	37	1	23761014	23761014	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:23761014G>A	uc001bha.2	-						ASAP3_uc001bgy.1_Intron|ASAP3_uc001bgz.1_Intron|ASAP3_uc010odz.1_Intron|ASAP3_uc010oea.1_Intron|ASAP3_uc001bhb.2_Intron	NM_017707	NP_060177	Q8TDY4	ASAP3_HUMAN	ArfGAP with SH3 domain, ankyrin repeat and PH						regulation of ARF GTPase activity	cytoplasm	ARF GTPase activator activity|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3						AGACAGGCAGGGAGGCTCTCA	0.328													8	29	---	---	---	---	PASS
CNR2	1269	broad.mit.edu	37	1	24201817	24201817	+	Silent	SNP	G	A	A	rs144279977	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:24201817G>A	uc001bif.2	-	2	418	c.291C>T	c.(289-291)TTC>TTT	p.F97F		NM_001841	NP_001832	P34972	CNR2_HUMAN	cannabinoid receptor 2 (macrophage)	97	Extracellular (Potential).				behavior|G-protein signaling, coupled to cyclic nucleotide second messenger|immune response|inflammatory response	dendrite|integral to plasma membrane|perikaryon	cannabinoid receptor activity			skin(2)|central_nervous_system(1)	3		Colorectal(325;3.46e-05)|Renal(390;0.000219)|Lung NSC(340;0.000233)|all_lung(284;0.000321)|Ovarian(437;0.00348)|Breast(348;0.00957)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;1.32e-24)|Colorectal(126;6.09e-08)|COAD - Colon adenocarcinoma(152;3.33e-06)|GBM - Glioblastoma multiforme(114;2.9e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00101)|KIRC - Kidney renal clear cell carcinoma(1967;0.00359)|STAD - Stomach adenocarcinoma(196;0.0131)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.146)	Nabilone(DB00486)	CCACACCATGGAAAACATGGA	0.547													24	39	---	---	---	---	PASS
MYOM3	127294	broad.mit.edu	37	1	24401903	24401903	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:24401903G>A	uc001bin.3	-	22	2927	c.2764C>T	c.(2764-2766)CCT>TCT	p.P922S	MYOM3_uc001bim.3_Missense_Mutation_p.P579S|MYOM3_uc001bio.2_Missense_Mutation_p.P922S	NM_152372	NP_689585	Q5VTT5	MYOM3_HUMAN	myomesin family, member 3	922										skin(2)|ovary(1)	3		Colorectal(325;3.55e-05)|Renal(390;0.000703)|Lung NSC(340;0.001)|all_lung(284;0.0014)|Ovarian(437;0.00351)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;5.31e-24)|Colorectal(126;7.52e-08)|COAD - Colon adenocarcinoma(152;4.01e-06)|GBM - Glioblastoma multiforme(114;4.36e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00108)|KIRC - Kidney renal clear cell carcinoma(1967;0.00404)|STAD - Stomach adenocarcinoma(196;0.00966)|READ - Rectum adenocarcinoma(331;0.0678)|Lung(427;0.153)		GGGGCTTCAGGGGCTTCAAAA	0.463													9	36	---	---	---	---	PASS
IL22RA1	58985	broad.mit.edu	37	1	24448054	24448054	+	Silent	SNP	G	A	A	rs151086369		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:24448054G>A	uc001biq.1	-	7	1005	c.966C>T	c.(964-966)TCC>TCT	p.S322S	IL22RA1_uc010oeg.1_Silent_p.S254S|IL22RA1_uc009vrb.1_Silent_p.S186S|IL22RA1_uc010oeh.1_Silent_p.S322S	NM_021258	NP_067081	Q8N6P7	I22R1_HUMAN	interleukin 22 receptor, alpha 1 precursor	322	Cytoplasmic (Potential).					integral to membrane	interferon receptor activity			skin(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.000992)|all_lung(284;0.00138)|Ovarian(437;0.00348)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;3.84e-24)|Colorectal(126;6.43e-08)|COAD - Colon adenocarcinoma(152;3.51e-06)|GBM - Glioblastoma multiforme(114;5.06e-05)|BRCA - Breast invasive adenocarcinoma(304;0.00104)|KIRC - Kidney renal clear cell carcinoma(1967;0.00371)|STAD - Stomach adenocarcinoma(196;0.00911)|READ - Rectum adenocarcinoma(331;0.0655)|Lung(427;0.148)		AGGTGATCTCGGACAGGCTAT	0.637													8	21	---	---	---	---	PASS
GRHL3	57822	broad.mit.edu	37	1	24663599	24663599	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:24663599C>T	uc001biy.2	+	5	705	c.659C>T	c.(658-660)TCC>TTC	p.S220F	GRHL3_uc001bix.2_Missense_Mutation_p.S215F|GRHL3_uc001biz.2_Missense_Mutation_p.S122F	NM_021180	NP_067003	Q8TE85	GRHL3_HUMAN	sister-of-mammalian grainyhead protein isoform	215					regulation of actin cytoskeleton organization|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.00171)|all_lung(284;0.00226)|Ovarian(437;0.00348)|Breast(348;0.0126)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.19)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0228)|OV - Ovarian serous cystadenocarcinoma(117;8.72e-25)|Colorectal(126;4.38e-08)|COAD - Colon adenocarcinoma(152;1.84e-06)|GBM - Glioblastoma multiforme(114;0.000132)|BRCA - Breast invasive adenocarcinoma(304;0.00105)|STAD - Stomach adenocarcinoma(196;0.00151)|KIRC - Kidney renal clear cell carcinoma(1967;0.00377)|READ - Rectum adenocarcinoma(331;0.0656)|Lung(427;0.143)		CTGAAAACCTCCCCGGAACCC	0.537													7	19	---	---	---	---	PASS
RCAN3	11123	broad.mit.edu	37	1	24861622	24861622	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:24861622C>T	uc001bjj.2	+	5	894	c.581C>T	c.(580-582)CCC>CTC	p.P194L	RCAN3_uc009vrd.2_Missense_Mutation_p.P184L|RCAN3_uc009vre.2_Missense_Mutation_p.P136L|RCAN3_uc009vrf.2_Missense_Mutation_p.P137S|RCAN3_uc009vrg.2_Missense_Mutation_p.P79S	NM_013441	NP_038469	Q9UKA8	RCAN3_HUMAN	Down syndrome critical region gene 1-like 2	194					anatomical structure morphogenesis|calcium-mediated signaling		nucleotide binding|RNA binding|troponin I binding				0		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.000946)|all_lung(284;0.00125)|Ovarian(437;0.00473)|Breast(348;0.0148)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.19)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0427)|OV - Ovarian serous cystadenocarcinoma(117;1.13e-24)|Colorectal(126;6.09e-08)|COAD - Colon adenocarcinoma(152;3.33e-06)|GBM - Glioblastoma multiforme(114;0.000923)|BRCA - Breast invasive adenocarcinoma(304;0.0018)|KIRC - Kidney renal clear cell carcinoma(1967;0.00359)|STAD - Stomach adenocarcinoma(196;0.00493)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.14)		GAGTCGACACCCAGCGTGGTG	0.473													6	26	---	---	---	---	PASS
SRRM1	10250	broad.mit.edu	37	1	24993329	24993329	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:24993329C>T	uc001bjm.2	+	13	1876	c.1652C>T	c.(1651-1653)TCC>TTC	p.S551F	SRRM1_uc010oel.1_Missense_Mutation_p.S563F|SRRM1_uc009vrh.1_Missense_Mutation_p.S524F|SRRM1_uc009vri.1_Missense_Mutation_p.S480F|SRRM1_uc010oem.1_RNA	NM_005839	NP_005830	Q8IYB3	SRRM1_HUMAN	serine/arginine repetitive matrix 1	551	Pro-rich.|Necessary for speckles and matrix localization.|Arg-rich.|Ser-rich.				mRNA 3'-end processing|mRNA export from nucleus|termination of RNA polymerase II transcription	catalytic step 2 spliceosome|cytosol|nuclear matrix|nuclear speck	DNA binding|protein binding|RNA binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3		Colorectal(325;3.46e-05)|Renal(390;0.0007)|Lung NSC(340;0.000946)|all_lung(284;0.00125)|Ovarian(437;0.00764)|Breast(348;0.0148)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.19)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0422)|OV - Ovarian serous cystadenocarcinoma(117;1.01e-24)|Colorectal(126;5.95e-08)|COAD - Colon adenocarcinoma(152;3.24e-06)|GBM - Glioblastoma multiforme(114;0.000148)|BRCA - Breast invasive adenocarcinoma(304;0.00177)|KIRC - Kidney renal clear cell carcinoma(1967;0.00348)|STAD - Stomach adenocarcinoma(196;0.00483)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.138)		AGAAGTCCATCCCCACCACCC	0.413													5	17	---	---	---	---	PASS
C1orf63	57035	broad.mit.edu	37	1	25572955	25572955	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:25572955G>A	uc001bjw.2	-	2	752	c.500C>T	c.(499-501)CCC>CTC	p.P167L		NM_020317	NP_064713	Q9BUV0	CA063_HUMAN	hypothetical protein LOC57035	167	Arg-rich.									pancreas(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;0.0101)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0936)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0415)|OV - Ovarian serous cystadenocarcinoma(117;7.9e-27)|Colorectal(126;8.83e-09)|COAD - Colon adenocarcinoma(152;6.43e-07)|STAD - Stomach adenocarcinoma(196;0.000333)|BRCA - Breast invasive adenocarcinoma(304;0.000443)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|GBM - Glioblastoma multiforme(114;0.000932)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.199)		TAAGCGAAAGGGGGTTCTGCT	0.547													8	77	---	---	---	---	PASS
PAQR7	164091	broad.mit.edu	37	1	26189845	26189845	+	Silent	SNP	G	A	A	rs146982273	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:26189845G>A	uc001bkx.2	-	2	1153	c.486C>T	c.(484-486)ATC>ATT	p.I162I		NM_178422	NP_848509	Q86WK9	MPRA_HUMAN	progestin and adipoQ receptor family member VII	162	Extracellular (Potential).				cell differentiation|multicellular organismal development|oogenesis	integral to membrane|plasma membrane	receptor activity|steroid binding			breast(3)	3		Colorectal(325;3.46e-05)|Lung NSC(340;0.00038)|all_lung(284;0.00051)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.0155)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0505)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;2.16e-25)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000724)|BRCA - Breast invasive adenocarcinoma(304;0.000965)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.0136)|READ - Rectum adenocarcinoma(331;0.0649)		AGGCGGGCTCGATAGCATAGT	0.547													12	65	---	---	---	---	PASS
SLC30A2	7780	broad.mit.edu	37	1	26369942	26369942	+	Silent	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:26369942A>G	uc001blh.1	-	3	589	c.372T>C	c.(370-372)ATT>ATC	p.I124I	SLC30A2_uc001blg.1_Silent_p.I173I	NM_032513	NP_115902	Q9BRI3	ZNT2_HUMAN	solute carrier family 30, member 2 isoform 2	124	Vacuolar (Potential).				positive regulation of sequestering of zinc ion|zinc ion transport	integral to membrane|late endosome|lysosomal membrane	cation transmembrane transporter activity				0		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;7.09e-26)|Colorectal(126;2.96e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.000728)|BRCA - Breast invasive adenocarcinoma(304;0.000969)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00614)|READ - Rectum adenocarcinoma(331;0.0649)		TCCCCCCGTCAATTTCATAGT	0.612													5	22	---	---	---	---	PASS
CCDC21	64793	broad.mit.edu	37	1	26596025	26596025	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:26596025C>T	uc001bls.1	+	9	1700	c.1569C>T	c.(1567-1569)ACC>ACT	p.T523T	CCDC21_uc001blr.2_Silent_p.T523T|CCDC21_uc010ofa.1_Silent_p.T472T|CCDC21_uc001blt.1_5'UTR	NM_022778	NP_073615	Q6P2H3	CEP85_HUMAN	coiled-coil domain containing 21	523	Potential.					centrosome|nucleolus|spindle pole					0		all_cancers(24;7e-19)|Colorectal(325;0.000147)|all_lung(284;0.00122)|Lung NSC(340;0.00128)|Renal(390;0.00211)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.051)|Breast(348;0.0589)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;2.6e-26)|Colorectal(126;1.65e-08)|COAD - Colon adenocarcinoma(152;9.48e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000794)|BRCA - Breast invasive adenocarcinoma(304;0.00105)|STAD - Stomach adenocarcinoma(196;0.00155)|GBM - Glioblastoma multiforme(114;0.00917)|READ - Rectum adenocarcinoma(331;0.0649)		TGGAGGAGACCCAGGCAATCT	0.488													7	30	---	---	---	---	PASS
UBXN11	91544	broad.mit.edu	37	1	26629298	26629298	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:26629298C>T	uc001blw.2	-						UBXN11_uc001blz.1_Intron|UBXN11_uc001blv.2_Intron|UBXN11_uc001bly.2_Intron|UBXN11_uc001blx.2_Intron|UBXN11_uc001bma.2_Intron|UBXN11_uc001bmb.1_Intron|UBXN11_uc010ofb.1_Intron|UBXN11_uc010ofc.1_Intron	NM_183008	NP_892120	Q5T124	UBX11_HUMAN	socius isoform 2							cytoplasm|cytoskeleton				ovary(1)	1						GAGGCTGGCTCCTTACCCAGG	0.532													5	7	---	---	---	---	PASS
ZNF683	257101	broad.mit.edu	37	1	26689508	26689508	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:26689508G>A	uc001bmg.1	-						ZNF683_uc001bmh.1_Intron|ZNF683_uc009vsj.1_Intron	NM_173574	NP_775845	Q8IZ20	ZN683_HUMAN	zinc finger protein 683						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_cancers(24;2.39e-25)|Colorectal(325;3.46e-05)|all_lung(284;5.94e-05)|Lung NSC(340;7.26e-05)|Renal(390;0.0007)|Ovarian(437;0.00473)|Breast(348;0.00637)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|OV - Ovarian serous cystadenocarcinoma(117;1.76e-26)|Colorectal(126;1.38e-08)|COAD - Colon adenocarcinoma(152;9.31e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.000751)|BRCA - Breast invasive adenocarcinoma(304;0.00099)|STAD - Stomach adenocarcinoma(196;0.00151)|GBM - Glioblastoma multiforme(114;0.00793)|READ - Rectum adenocarcinoma(331;0.0649)|Lung(427;0.159)|LUSC - Lung squamous cell carcinoma(448;0.233)		AGGGGGAGAAGGATCTCACCG	0.587													4	20	---	---	---	---	PASS
ARID1A	8289	broad.mit.edu	37	1	27056296	27056296	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:27056296C>A	uc001bmv.1	+	2	1665	c.1292C>A	c.(1291-1293)CCG>CAG	p.P431Q	ARID1A_uc001bmt.1_Missense_Mutation_p.P431Q|ARID1A_uc001bmu.1_Missense_Mutation_p.P431Q|ARID1A_uc001bmw.1_Missense_Mutation_p.P48Q	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	431					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)		CAGCGGTACCCGATGACCATG	0.602			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								3	14	---	---	---	---	PASS
ARID1A	8289	broad.mit.edu	37	1	27100302	27100302	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:27100302C>T	uc001bmv.1	+	17	4387	c.4014C>T	c.(4012-4014)TCC>TCT	p.S1338S	ARID1A_uc001bmt.1_Silent_p.S1337S|ARID1A_uc001bmu.1_Silent_p.S1338S|ARID1A_uc001bmw.1_Silent_p.S955S|ARID1A_uc001bmx.1_Silent_p.S184S|ARID1A_uc009vsm.1_5'UTR|ARID1A_uc009vsn.1_5'Flank	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	1338	Gln-rich.				androgen receptor signaling pathway|chromatin-mediated maintenance of transcription|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|nervous system development|nucleosome mobilization|transcription, DNA-dependent	nBAF complex|npBAF complex|SWI/SNF complex	DNA binding|protein binding	p.S1338fs*106(2)		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)		GACATGATTCCTATGGCAATC	0.532			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								79	98	---	---	---	---	PASS
ARID1A	8289	broad.mit.edu	37	1	27106700	27106700	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:27106700C>T	uc001bmv.1	+	20	6684	c.6311C>T	c.(6310-6312)TCC>TTC	p.S2104F	ARID1A_uc001bmu.1_Missense_Mutation_p.S1887F|ARID1A_uc001bmx.1_Missense_Mutation_p.S950F|ARID1A_uc009vsm.1_Missense_Mutation_p.S432F|ARID1A_uc009vsn.1_Missense_Mutation_p.S346F	NM_006015	NP_006006	O14497	ARI1A_HUMAN	AT rich interactive domain 1A isoform a	2104					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)		GACCCCTTTTCCACCCTGGGC	0.577			Mis|N|F|S|D		clear cell ovarian carcinoma|RCC								25	57	---	---	---	---	PASS
GPATCH3	63906	broad.mit.edu	37	1	27217599	27217599	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:27217599G>A	uc001bne.2	-	7	1509	c.1480C>T	c.(1480-1482)CTC>TTC	p.L494F	GPN2_uc001bnd.1_5'Flank|GPATCH3_uc009vsp.1_Missense_Mutation_p.L305F	NM_022078	NP_071361	Q96I76	GPTC3_HUMAN	G patch domain containing 3	494						intracellular	nucleic acid binding				0		all_cancers(24;1.29e-21)|all_epithelial(13;2.35e-19)|Colorectal(325;0.000147)|all_lung(284;0.00122)|Lung NSC(340;0.00128)|Breast(348;0.00131)|Renal(390;0.00211)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;3.97e-51)|OV - Ovarian serous cystadenocarcinoma(117;9.55e-30)|Colorectal(126;5.31e-09)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000513)|STAD - Stomach adenocarcinoma(196;0.000595)|KIRC - Kidney renal clear cell carcinoma(1967;0.00072)|READ - Rectum adenocarcinoma(331;0.0419)		TGGCGGCGGAGCAGTGACTCC	0.572													8	10	---	---	---	---	PASS
C1orf172	126695	broad.mit.edu	37	1	27278630	27278630	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:27278630C>T	uc001bni.1	-	2	331	c.242G>A	c.(241-243)TGG>TAG	p.W81*		NM_152365	NP_689578	Q8NAX2	CA172_HUMAN	hypothetical protein LOC126695	81	Cys-rich.									large_intestine(1)|ovary(1)	2		all_cancers(24;1.29e-21)|all_epithelial(13;2.35e-19)|Colorectal(325;0.000147)|all_lung(284;0.00122)|Lung NSC(340;0.00128)|Breast(348;0.00131)|Renal(390;0.00211)|Myeloproliferative disorder(586;0.0393)|Ovarian(437;0.0707)|all_neural(195;0.0966)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;3.37e-51)|OV - Ovarian serous cystadenocarcinoma(117;2.22e-29)|Colorectal(126;5.31e-09)|COAD - Colon adenocarcinoma(152;9.31e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000272)|STAD - Stomach adenocarcinoma(196;0.000588)|KIRC - Kidney renal clear cell carcinoma(1967;0.000716)|READ - Rectum adenocarcinoma(331;0.0419)		CTCCCACACCCAGGGTCGCCA	0.672													6	8	---	---	---	---	PASS
SLC9A1	6548	broad.mit.edu	37	1	27427075	27427075	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:27427075G>T	uc001bnm.2	-	12	2797	c.2171C>A	c.(2170-2172)CCG>CAG	p.P724Q	SLC9A1_uc001bnl.2_Missense_Mutation_p.P228Q|SLC9A1_uc010ofk.1_Missense_Mutation_p.P385Q	NM_003047	NP_003038	P19634	SL9A1_HUMAN	solute carrier family 9, isoform A1	724	Cytoplasmic (Potential).				regulation of pH	integral to membrane	sodium:hydrogen antiporter activity			ovary(1)|central_nervous_system(1)	2				UCEC - Uterine corpus endometrioid carcinoma (279;0.0178)|Epithelial(14;2.19e-50)|OV - Ovarian serous cystadenocarcinoma(117;1.8e-29)|Colorectal(126;7.61e-09)|COAD - Colon adenocarcinoma(152;9.32e-07)|BRCA - Breast invasive adenocarcinoma(304;0.000521)|KIRC - Kidney renal clear cell carcinoma(1967;0.00079)|STAD - Stomach adenocarcinoma(196;0.00125)|READ - Rectum adenocarcinoma(331;0.046)	Amiloride(DB00594)	GGGTGACTGCGGGGAAGCCGG	0.607													5	131	---	---	---	---	PASS
MAP3K6	9064	broad.mit.edu	37	1	27690893	27690893	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:27690893G>A	uc001bny.1	-						MAP3K6_uc009vsw.1_Intron|MAP3K6_uc001bnz.1_5'Flank	NM_004672	NP_004663	O95382	M3K6_HUMAN	mitogen-activated protein kinase kinase kinase						activation of JUN kinase activity		ATP binding|magnesium ion binding|MAP kinase kinase kinase activity			breast(4)|lung(3)|ovary(1)|central_nervous_system(1)	9		all_lung(284;1.6e-05)|Lung NSC(340;2.92e-05)|Colorectal(325;3.46e-05)|Renal(390;0.0007)|Breast(348;0.0021)|Ovarian(437;0.0175)|Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0381)		UCEC - Uterine corpus endometrioid carcinoma (279;0.0416)|OV - Ovarian serous cystadenocarcinoma(117;1.69e-27)|Colorectal(126;1.24e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|BRCA - Breast invasive adenocarcinoma(304;0.00132)|KIRC - Kidney renal clear cell carcinoma(1967;0.00163)|STAD - Stomach adenocarcinoma(196;0.00303)|READ - Rectum adenocarcinoma(331;0.0419)		ATCCTGGTGGGAGGGAGGCAG	0.587													7	38	---	---	---	---	PASS
SMPDL3B	27293	broad.mit.edu	37	1	28282619	28282619	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:28282619G>A	uc001bpg.2	+						SMPDL3B_uc001bpf.2_Missense_Mutation_p.G344E|SMPDL3B_uc010ofq.1_Intron|SMPDL3B_uc010ofr.1_Intron	NM_014474	NP_055289	Q92485	ASM3B_HUMAN	acid sphingomyelinase-like phosphodiesterase 3B						sphingomyelin catabolic process	extracellular space	hydrolase activity, acting on glycosyl bonds|sphingomyelin phosphodiesterase activity			ovary(3)	3		Colorectal(325;3.46e-05)|all_lung(284;0.000414)|Lung NSC(340;0.000431)|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;5.68e-24)|Colorectal(126;1.65e-08)|COAD - Colon adenocarcinoma(152;1.7e-06)|KIRC - Kidney renal clear cell carcinoma(1967;0.00273)|STAD - Stomach adenocarcinoma(196;0.00303)|BRCA - Breast invasive adenocarcinoma(304;0.00587)|READ - Rectum adenocarcinoma(331;0.055)		GAGGCCAGAGGAGGAGGGTGG	0.587													17	16	---	---	---	---	PASS
PUM1	9698	broad.mit.edu	37	1	31437699	31437699	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:31437699G>A	uc001bsi.1	-	14	2258	c.2145C>T	c.(2143-2145)GAC>GAT	p.D715D	PUM1_uc001bsf.1_Silent_p.D381D|PUM1_uc001bsg.1_Intron|PUM1_uc001bsh.1_Silent_p.D715D|PUM1_uc001bsj.1_Silent_p.D689D|PUM1_uc010oga.1_Silent_p.D571D|PUM1_uc001bsk.1_Silent_p.D751D|PUM1_uc010ogb.1_Silent_p.D656D	NM_014676	NP_055491	Q14671	PUM1_HUMAN	pumilio 1 isoform 2	715	Ser-rich.				cellular membrane organization|post-Golgi vesicle-mediated transport|regulation of translation	cytosol	RNA binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3		Colorectal(325;0.0211)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0308)|all_neural(195;0.0381)|Breast(348;0.0848)|Medulloblastoma(700;0.123)		STAD - Stomach adenocarcinoma(196;0.0232)|READ - Rectum adenocarcinoma(331;0.0681)		TCTTATAAAGGTCACTGCTGC	0.507													5	29	---	---	---	---	PASS
TINAGL1	64129	broad.mit.edu	37	1	32051059	32051059	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:32051059G>A	uc001bta.2	+	9	1192	c.1066G>A	c.(1066-1068)GAG>AAG	p.E356K	TINAGL1_uc001bsz.2_Missense_Mutation_p.E211K|TINAGL1_uc010ogj.1_Missense_Mutation_p.E325K|TINAGL1_uc010ogk.1_Missense_Mutation_p.E356K	NM_022164	NP_071447	Q9GZM7	TINAL_HUMAN	tubulointerstitial nephritis antigen-like 1	356					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)		GATCATGAAGGAGCTGATGGA	0.577													37	66	---	---	---	---	PASS
KPNA6	23633	broad.mit.edu	37	1	32626221	32626221	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:32626221C>T	uc001bug.2	+	7	652	c.564C>T	c.(562-564)GTC>GTT	p.V188V	KPNA6_uc001buh.2_5'UTR|KPNA6_uc010ogx.1_Silent_p.V185V|KPNA6_uc010ogy.1_Silent_p.V193V|KPNA6_uc009vtz.2_Silent_p.V83V	NM_012316	NP_036448	O60684	IMA7_HUMAN	karyopherin alpha 6	188	ARM 3.|NLS binding site (major) (By similarity).				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)				TTCAGGCAGTCTGGGCACTGG	0.438													8	14	---	---	---	---	PASS
DCDC2B	149069	broad.mit.edu	37	1	32680440	32680440	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:32680440G>A	uc001bun.2	+	7	757	c.757G>A	c.(757-759)GAA>AAA	p.E253K	C1orf91_uc001buo.3_RNA|C1orf91_uc001bup.3_RNA	NM_001099434	NP_001092904	A2VCK2	DCD2B_HUMAN	doublecortin domain containing 2B	253					intracellular signal transduction						0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Ovarian(437;0.101)|Breast(348;0.174)				CTCTCCAAAGGAACCAGACCG	0.557													24	42	---	---	---	---	PASS
RBBP4	5928	broad.mit.edu	37	1	33134917	33134917	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:33134917C>T	uc001bvr.2	+	7	1006	c.847C>T	c.(847-849)CCT>TCT	p.P283S	RBBP4_uc001bvs.2_Missense_Mutation_p.P282S|RBBP4_uc010ohj.1_Missense_Mutation_p.P31S|RBBP4_uc010ohk.1_Missense_Mutation_p.P248S	NM_005610	NP_005601	Q09028	RBBP4_HUMAN	retinoblastoma binding protein 4 isoform a	283	WD 4.				cell cycle|CenH3-containing nucleosome assembly at centromere|DNA replication|negative regulation of cell proliferation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	CAF-1 complex|ESC/E(Z) complex|NuRD complex|NURF complex|Sin3 complex	histone binding|histone deacetylase binding			ovary(1)	1		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)				TTCTTTCAATCCTTATAGTGA	0.368													16	39	---	---	---	---	PASS
KIAA1522	57648	broad.mit.edu	37	1	33236902	33236902	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:33236902C>T	uc001bvv.2	+	6	2081	c.1945C>T	c.(1945-1947)CCC>TCC	p.P649S	KIAA1522_uc001bvu.1_Missense_Mutation_p.P708S|KIAA1522_uc010ohm.1_Missense_Mutation_p.P660S|KIAA1522_uc010ohn.1_Intron	NM_020888	NP_065939	Q9P206	K1522_HUMAN	hypothetical protein LOC57648	649	Pro-rich.										0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0837)|Breast(348;0.244)				TCAGTCCCCTCCCACTCCCCA	0.622													16	21	---	---	---	---	PASS
CSMD2	114784	broad.mit.edu	37	1	34066511	34066511	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:34066511G>T	uc001bxn.1	-	45	6845	c.6816C>A	c.(6814-6816)TTC>TTA	p.F2272L	CSMD2_uc001bxm.1_Missense_Mutation_p.F2270L|CSMD2_uc001bxo.1_Missense_Mutation_p.F1143L	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	CUB and Sushi multiple domains 2	2272	Extracellular (Potential).|CUB 13.					integral to membrane|plasma membrane	protein binding			ovary(6)|skin(5)|pancreas(1)	12		Myeloproliferative disorder(586;0.0294)|all_neural(195;0.249)				CATCACGGTGGAACTTGAGCA	0.448													32	32	---	---	---	---	PASS
HMGB4	127540	broad.mit.edu	37	1	34330140	34330140	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:34330140G>A	uc001bxp.2	+	2	2091	c.348G>A	c.(346-348)CCG>CCA	p.P116P	CSMD2_uc001bxm.1_Intron|CSMD2_uc001bxn.1_Intron|HMGB4_uc001bxq.2_Silent_p.P42P	NM_145205	NP_660206	Q8WW32	HMGB4_HUMAN	HMG2 like isoform 1	116						nucleus	DNA binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.211)				GGGAGAACCCGAACTGGTCGG	0.567													16	41	---	---	---	---	PASS
GJB4	127534	broad.mit.edu	37	1	35227199	35227199	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:35227199C>T	uc001bxv.1	+	2	714	c.344C>T	c.(343-345)TCC>TTC	p.S115F	GJB4_uc001bxw.3_Missense_Mutation_p.S115F	NM_153212	NP_694944	Q9NTQ9	CXB4_HUMAN	gap junction protein, beta 4	115	Cytoplasmic (Potential).				cell communication	connexon complex|integral to membrane	gap junction channel activity			ovary(2)|central_nervous_system(1)	3		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.234)				AATGCCCCGTCCCTGTACGAC	0.617													8	22	---	---	---	---	PASS
KIAA0319L	79932	broad.mit.edu	37	1	36020100	36020100	+	5'UTR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:36020100C>T	uc001byx.2	-	2					KIAA0319L_uc010ohw.1_RNA|KIAA0319L_uc001byz.2_5'UTR|KIAA0319L_uc010ohx.1_5'UTR	NM_024874	NP_079150	Q8IZA0	K319L_HUMAN	dyslexia susceptibility 2-like							cytoplasmic vesicle part|integral to membrane	protein binding			skin(2)	2		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				CATGGCCCTCCAGACAGGCAG	0.428													20	35	---	---	---	---	PASS
EIF2C3	192669	broad.mit.edu	37	1	36439031	36439031	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:36439031C>T	uc001bzp.2	+	5	833	c.577C>T	c.(577-579)CTG>TTG	p.L193L	EIF2C3_uc001bzn.1_Silent_p.L193L|EIF2C3_uc001bzo.2_RNA|EIF2C3_uc001bzq.2_Intron	NM_024852	NP_079128	Q9H9G7	AGO3_HUMAN	eukaryotic translation initiation factor 2C, 3	193					mRNA catabolic process|negative regulation of translation involved in gene silencing by miRNA	cytoplasmic mRNA processing body|cytosol	protein binding|RNA binding				0		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.0887)				TGACCACCCTCTGGGAGGGGG	0.463													35	62	---	---	---	---	PASS
C1orf113	79729	broad.mit.edu	37	1	36785735	36785735	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:36785735T>G	uc010oia.1	+	14	1499	c.1471T>G	c.(1471-1473)TCT>GCT	p.S491A	C1orf113_uc010oib.1_Missense_Mutation_p.S380A|C1orf113_uc010oic.1_RNA|C1orf113_uc009vuz.1_Missense_Mutation_p.S137A	NM_001162530	NP_001156002	A4FU49	SH321_HUMAN	SH3 domain-containing protein C1orf113 isoform	375											0		Myeloproliferative disorder(586;0.0393)				CCCAGAGCTTTCTGAAGAAGA	0.512													9	48	---	---	---	---	PASS
INPP5B	3633	broad.mit.edu	37	1	38352552	38352552	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:38352552G>A	uc001ccg.1	-						INPP5B_uc009vvk.1_Intron|INPP5B_uc001ccf.1_Intron|INPP5B_uc010oij.1_Intron	NM_005540	NP_005531	P32019	I5P2_HUMAN	inositol polyphosphate-5-phosphatase, 75kDa						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to membrane|microtubule cytoskeleton	GTPase activator activity|inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			urinary_tract(1)	1	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				AACCAACCAAGGACTCACCAT	0.478													14	42	---	---	---	---	PASS
INPP5B	3633	broad.mit.edu	37	1	38352553	38352553	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:38352553G>A	uc001ccg.1	-						INPP5B_uc009vvk.1_Intron|INPP5B_uc001ccf.1_Intron|INPP5B_uc010oij.1_Intron	NM_005540	NP_005531	P32019	I5P2_HUMAN	inositol polyphosphate-5-phosphatase, 75kDa						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to membrane|microtubule cytoskeleton	GTPase activator activity|inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			urinary_tract(1)	1	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				ACCAACCAAGGACTCACCATC	0.483													14	42	---	---	---	---	PASS
INPP5B	3633	broad.mit.edu	37	1	38409561	38409561	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:38409561A>T	uc001ccg.1	-	4	251	c.157T>A	c.(157-159)TTC>ATC	p.F53I	INPP5B_uc009vvk.1_5'UTR|INPP5B_uc001cch.2_5'UTR	NM_005540	NP_005531	P32019	I5P2_HUMAN	inositol polyphosphate-5-phosphatase, 75kDa	53					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|integral to membrane|microtubule cytoskeleton	GTPase activator activity|inositol-polyphosphate 5-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|protein binding			urinary_tract(1)	1	Acute lymphoblastic leukemia(166;0.074)|all_hematologic(146;0.197)	Myeloproliferative disorder(586;0.0255)				GTATAGAGGAAGAGACTAAGG	0.602													7	46	---	---	---	---	PASS
RHBDL2	54933	broad.mit.edu	37	1	39361688	39361688	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:39361688C>T	uc001ccu.1	-	5	790	c.562G>A	c.(562-564)GGA>AGA	p.G188R	RHBDL2_uc010oin.1_Missense_Mutation_p.G188R|RHBDL2_uc010oio.1_Missense_Mutation_p.G268R	NM_017821	NP_060291	Q9NX52	RHBL2_HUMAN	rhomboid protease 2	188	Helical; (Potential).				proteolysis	integral to membrane|plasma membrane	serine-type endopeptidase activity				0	Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0255)	OV - Ovarian serous cystadenocarcinoma(33;8.23e-17)			TAGACTCCTCCTGAAGCTCCC	0.443													14	14	---	---	---	---	PASS
MACF1	23499	broad.mit.edu	37	1	39800237	39800237	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:39800237G>A	uc010oiu.1	+	1	3428	c.3297G>A	c.(3295-3297)GTG>GTA	p.V1099V	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	2664					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)			AAGATGGGGTGAGCGACAAAG	0.403													7	24	---	---	---	---	PASS
MACF1	23499	broad.mit.edu	37	1	39903523	39903523	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:39903523C>T	uc010oiu.1	+	36	13523	c.13392C>T	c.(13390-13392)ATC>ATT	p.I4464I	MACF1_uc010ois.1_Silent_p.I3962I	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					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)			CACCACTGATCCCTGCTGAAG	0.463													14	88	---	---	---	---	PASS
MACF1	23499	broad.mit.edu	37	1	39927685	39927685	+	Silent	SNP	C	A	A	rs116271948	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:39927685C>A	uc010oiu.1	+	58	17114	c.16983C>A	c.(16981-16983)ACC>ACA	p.T5661T	MACF1_uc010ois.1_Silent_p.T5159T|MACF1_uc001cde.1_Silent_p.T36T|MACF1_uc001cdf.1_Silent_p.T36T	NM_033044	NP_149033	Q9UPN3	MACF1_HUMAN	microfilament and actin filament cross-linker	7117	C-terminal tail (By similarity).|GAR.				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)			GACCAACAACCGATGCAGATA	0.408													4	72	---	---	---	---	PASS
NT5C1A	84618	broad.mit.edu	37	1	40131857	40131857	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:40131857G>A	uc001cdq.1	-	2	187	c.187C>T	c.(187-189)CGC>TGC	p.R63C		NM_032526	NP_115915	Q9BXI3	5NT1A_HUMAN	5'-nucleotidase, cytosolic IA	63					purine base metabolic process|purine nucleotide catabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	cytosol	5'-nucleotidase activity|magnesium ion binding|nucleotide binding			ovary(1)	1	Lung NSC(20;3.81e-06)|Ovarian(52;0.00769)|all_hematologic(146;0.0501)|Acute lymphoblastic leukemia(166;0.074)	Myeloproliferative disorder(586;0.0393)	OV - Ovarian serous cystadenocarcinoma(33;1.87e-18)|Epithelial(16;4.3e-17)|all cancers(16;8.48e-16)|LUSC - Lung squamous cell carcinoma(16;0.000261)|Lung(16;0.000457)			TCGTCCATGCGAAACAAGGCT	0.597													17	22	---	---	---	---	PASS
ZNF643	65243	broad.mit.edu	37	1	40929061	40929061	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:40929061C>T	uc001cfn.1	+	5	1702	c.1405C>T	c.(1405-1407)CAT>TAT	p.H469Y	ZNF643_uc001cfl.1_Missense_Mutation_p.H367Y|ZNF643_uc001cfm.1_Missense_Mutation_p.H335Y	NM_023070	NP_075558	Q9UJL9	ZN643_HUMAN	zinc finger protein 643	469	C2H2-type 7.				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)			TCAGAGAGTCCATACTGGAGT	0.393													15	22	---	---	---	---	PASS
KCNQ4	9132	broad.mit.edu	37	1	41285134	41285134	+	Missense_Mutation	SNP	G	T	T	rs28937589		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:41285134G>T	uc001cgh.1	+	5	906	c.824G>T	c.(823-825)TGG>TTG	p.W275L	KCNQ4_uc001cgi.1_Missense_Mutation_p.W275L	NM_004700	NP_004691	P56696	KCNQ4_HUMAN	potassium voltage-gated channel KQT-like protein	275					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)			GACTCGCTCTGGTGGGGGACG	0.617													25	44	---	---	---	---	PASS
HIVEP3	59269	broad.mit.edu	37	1	42047565	42047565	+	Silent	SNP	G	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:42047565G>C	uc001cgz.3	-	4	4117	c.2904C>G	c.(2902-2904)CCC>CCG	p.P968P	HIVEP3_uc001cha.3_Silent_p.P968P|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	968	No DNA binding activity or transactivation activity, but complete prevention of TRAF-dependent NF-Kappa-B activation; associates with TRAF2 and JUN (By similarity).				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)				CCAGGGGTTTGGGGCGCATGT	0.602													6	42	---	---	---	---	PASS
HIVEP3	59269	broad.mit.edu	37	1	42047975	42047975	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:42047975G>A	uc001cgz.3	-	4	3707	c.2494C>T	c.(2494-2496)CCA>TCA	p.P832S	HIVEP3_uc001cha.3_Missense_Mutation_p.P832S|HIVEP3_uc001cgy.2_RNA	NM_024503	NP_078779	Q5T1R4	ZEP3_HUMAN	human immunodeficiency virus type I enhancer	832	No DNA binding activity or transactivation activity, but complete prevention of TRAF-dependent NF-Kappa-B activation; associates with TRAF2 and JUN (By similarity).				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)				GGGGCAGGTGGGGGTGATGGG	0.572													10	51	---	---	---	---	PASS
CCDC30	728621	broad.mit.edu	37	1	43042679	43042679	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:43042679C>T	uc009vwk.1	+						CCDC30_uc001chm.2_Intron|CCDC30_uc001chn.2_Intron|CCDC30_uc010oju.1_Intron|CCDC30_uc001chp.2_Intron	NM_001080850	NP_001074319	Q5VVM6	CCD30_HUMAN	coiled-coil domain containing 30												0						CTTACTTATTCTCTACCTCTA	0.378													11	9	---	---	---	---	PASS
LEPRE1	64175	broad.mit.edu	37	1	43216015	43216015	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:43216015G>A	uc001chv.2	-						LEPRE1_uc001chw.2_Intron|LEPRE1_uc001chx.3_Intron	NM_022356	NP_071751	Q32P28	P3H1_HUMAN	leprecan 1 isoform 1						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)	CAGCTGCCAAGGAGACAGATG	0.378													3	19	---	---	---	---	PASS
ERMAP	114625	broad.mit.edu	37	1	43300733	43300733	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:43300733C>T	uc001cic.1	+	5	728	c.458C>T	c.(457-459)CCC>CTC	p.P153L	ERMAP_uc010ojw.1_Missense_Mutation_p.P214L|ERMAP_uc001cid.1_RNA|ERMAP_uc001cie.1_Missense_Mutation_p.P153L|ERMAP_uc001cif.1_Missense_Mutation_p.P63L	NM_001017922	NP_001017922	Q96PL5	ERMAP_HUMAN	erythroblast membrane-associated protein	153	Extracellular (Potential).		Missing (in Sc-3 allele).			integral to membrane|plasma membrane				ovary(1)	1	Ovarian(52;0.00769)|all_hematologic(146;0.0977)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0333)				AGTCTCTCCCCCTCAGCAGTG	0.532													24	44	---	---	---	---	PASS
TIE1	7075	broad.mit.edu	37	1	43778105	43778105	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:43778105G>A	uc001ciu.2	+	12	1839	c.1760G>A	c.(1759-1761)GGG>GAG	p.G587E	TIE1_uc010okd.1_Missense_Mutation_p.G587E|TIE1_uc010oke.1_Missense_Mutation_p.G542E|TIE1_uc009vwq.2_Missense_Mutation_p.G543E|TIE1_uc010okf.1_Missense_Mutation_p.G232E|TIE1_uc010okg.1_Missense_Mutation_p.G232E	NM_005424	NP_005415	P35590	TIE1_HUMAN	tyrosine kinase with immunoglobulin-like and	587	Fibronectin type-III 2.|Extracellular (Potential).				mesoderm development	integral to plasma membrane	ATP binding|protein binding|transmembrane receptor protein tyrosine kinase activity			lung(3)|stomach(1)|salivary_gland(1)|ovary(1)|skin(1)	7	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CTGTGGGACGGGACACGGGGG	0.692													7	10	---	---	---	---	PASS
KIAA0467	23334	broad.mit.edu	37	1	43898414	43898414	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:43898414C>T	uc001cjk.1	+	24	3311	c.2849C>T	c.(2848-2850)CCC>CTC	p.P950L		NM_015284	NP_056099	Q5T011	SZT2_HUMAN	hypothetical protein LOC23334	1849						peroxisome					0	all_hematologic(146;0.0958)|Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0505)				CAGCCTGGGCCCAGCCGGGGA	0.572													4	13	---	---	---	---	PASS
IPO13	9670	broad.mit.edu	37	1	44422081	44422081	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:44422081C>T	uc001ckx.2	+	3	1706	c.911C>T	c.(910-912)ACC>ATC	p.T304I		NM_014652	NP_055467	O94829	IPO13_HUMAN	importin 13	304	HEAT 4.				protein import into nucleus	cytoplasm|nucleus	protein binding|protein transporter activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0821)				GACATGGAGACCTCCCATGGC	0.587													9	15	---	---	---	---	PASS
IPO13	9670	broad.mit.edu	37	1	44422082	44422082	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:44422082C>T	uc001ckx.2	+	3	1707	c.912C>T	c.(910-912)ACC>ACT	p.T304T		NM_014652	NP_055467	O94829	IPO13_HUMAN	importin 13	304	HEAT 4.				protein import into nucleus	cytoplasm|nucleus	protein binding|protein transporter activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(166;0.155)	Myeloproliferative disorder(586;0.0821)				ACATGGAGACCTCCCATGGCA	0.587													9	15	---	---	---	---	PASS
B4GALT2	8704	broad.mit.edu	37	1	44446940	44446940	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:44446940C>T	uc001clg.2	+	2	478	c.108C>T	c.(106-108)GCC>GCT	p.A36A	B4GALT2_uc001clh.2_5'UTR|B4GALT2_uc010okl.1_Silent_p.A65A|B4GALT2_uc001cli.2_Silent_p.A36A	NM_003780	NP_003771	O60909	B4GT2_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	36	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)	ACGTCTACGCCCAGCACCTGG	0.587													9	32	---	---	---	---	PASS
KIF2C	11004	broad.mit.edu	37	1	45213357	45213357	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:45213357C>T	uc001cmg.3	+	4	416	c.301C>T	c.(301-303)CCT>TCT	p.P101S	KIF2C_uc010olb.1_Missense_Mutation_p.P101S|KIF2C_uc010olc.1_5'UTR|KIF2C_uc001cmh.3_Missense_Mutation_p.P47S	NM_006845	NP_006836	Q99661	KIF2C_HUMAN	kinesin family member 2C	101	Microtubule tip localization signal.|Globular (Potential).			IP->NN: Loss of interaction with MAPRE1 and association with microtubule growing ends.	blood coagulation|cell division|cell proliferation|chromosome segregation|establishment or maintenance of microtubule cytoskeleton polarity|microtubule depolymerization|microtubule-based movement|mitotic prometaphase|regulation of chromosome segregation	condensed chromosome kinetochore|cytosol|kinesin complex|microtubule|nucleus	ATP binding|centromeric DNA binding|microtubule motor activity|microtubule plus-end binding			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					CTCCAAAATTCCTGCTCCAAA	0.398													4	14	---	---	---	---	PASS
RPS8	6202	broad.mit.edu	37	1	45243440	45243440	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:45243440C>T	uc001cmi.2	+	4	389	c.366C>T	c.(364-366)GGC>GGT	p.G122G	SNORD38A_uc009vxi.2_5'Flank|SNORD38B_uc001cml.2_5'Flank	NM_001012	NP_001003	P62241	RS8_HUMAN	ribosomal protein S8	122					endocrine pancreas development|maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit	protein binding|structural constituent of ribosome			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					TGCCCCTGGGCCGCAAGAAGG	0.577													4	25	---	---	---	---	PASS
RPS8	6202	broad.mit.edu	37	1	45243441	45243441	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:45243441C>T	uc001cmi.2	+	4	390	c.367C>T	c.(367-369)CGC>TGC	p.R123C	SNORD38A_uc009vxi.2_5'Flank|SNORD38B_uc001cml.2_5'Flank	NM_001012	NP_001003	P62241	RS8_HUMAN	ribosomal protein S8	123					endocrine pancreas development|maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit	protein binding|structural constituent of ribosome			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					GCCCCTGGGCCGCAAGAAGGG	0.582													4	26	---	---	---	---	PASS
BEST4	266675	broad.mit.edu	37	1	45250841	45250841	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:45250841G>T	uc001cmm.2	-	6	900	c.851C>A	c.(850-852)CCG>CAG	p.P284Q		NM_153274	NP_695006	Q8NFU0	BEST4_HUMAN	bestrophin 4	284	Extracellular (Potential).					chloride channel complex|plasma membrane	chloride channel activity			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					GTACATGTCCGGGTCTCCCAG	0.622													4	40	---	---	---	---	PASS
EIF2B3	8891	broad.mit.edu	37	1	45347342	45347342	+	Silent	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:45347342T>A	uc001cmt.1	-	7	853	c.726A>T	c.(724-726)TCA>TCT	p.S242S	EIF2B3_uc001cmu.1_Silent_p.S242S|EIF2B3_uc001cmv.1_Silent_p.S242S|EIF2B3_uc001cmw.2_Silent_p.S242S	NM_020365	NP_065098	Q9NR50	EI2BG_HUMAN	eukaryotic translation initiation factor 2B,	242					negative regulation of translational initiation in response to stress|oligodendrocyte development|response to glucose stimulus|response to heat|response to peptide hormone stimulus	cytosol|eukaryotic translation initiation factor 2B complex	nucleotidyltransferase activity|protein binding|translation initiation factor activity			ovary(1)	1	Acute lymphoblastic leukemia(166;0.155)					GTCCCTGTTGTGAGGAAGCTG	0.413													35	45	---	---	---	---	PASS
MAST2	23139	broad.mit.edu	37	1	46290251	46290251	+	Silent	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:46290251G>T	uc001cov.2	+	2	607	c.324G>T	c.(322-324)TCG>TCT	p.S108S	MAST2_uc001cow.2_Silent_p.S108S	NM_015112	NP_055927	Q6P0Q8	MAST2_HUMAN	microtubule associated serine/threonine kinase	108					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)					GCTCTCTATCGGGTAAATATC	0.373													4	97	---	---	---	---	PASS
MAST2	23139	broad.mit.edu	37	1	46497954	46497954	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:46497954C>T	uc001cov.2	+	25	3575	c.3292C>T	c.(3292-3294)CTT>TTT	p.L1098F	MAST2_uc001cow.2_Missense_Mutation_p.L1098F|MAST2_uc001cpa.2_Intron	NM_015112	NP_055927	Q6P0Q8	MAST2_HUMAN	microtubule associated serine/threonine kinase	1098					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)					CTTGCCAGCCCTTGGCAGCAT	0.597													21	35	---	---	---	---	PASS
MAST2	23139	broad.mit.edu	37	1	46499737	46499737	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:46499737C>T	uc001cov.2	+						MAST2_uc001cow.2_Intron|MAST2_uc001cpa.2_Intron	NM_015112	NP_055927	Q6P0Q8	MAST2_HUMAN	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)					TGACCCTTATCCCCGCAGCAG	0.587													15	60	---	---	---	---	PASS
MAST2	23139	broad.mit.edu	37	1	46499738	46499738	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:46499738C>T	uc001cov.2	+						MAST2_uc001cow.2_Intron|MAST2_uc001cpa.2_Intron	NM_015112	NP_055927	Q6P0Q8	MAST2_HUMAN	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)					GACCCTTATCCCCGCAGCAGA	0.587													15	61	---	---	---	---	PASS
LRRC41	10489	broad.mit.edu	37	1	46746910	46746910	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:46746910G>A	uc001cpn.2	-	5	1687	c.1643C>T	c.(1642-1644)CCC>CTC	p.P548L	LRRC41_uc010omb.1_Missense_Mutation_p.P548L	NM_006369	NP_006360	Q15345	LRC41_HUMAN	MUF1 protein	548	LRR 3.									ovary(2)|breast(1)|pancreas(1)	4	Acute lymphoblastic leukemia(166;0.155)					CCGTAGCAGGGGCAGTGCTCG	0.612													7	18	---	---	---	---	PASS
CYP4X1	260293	broad.mit.edu	37	1	47504382	47504382	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:47504382G>A	uc001cqt.2	+	7	1076	c.826G>A	c.(826-828)GAT>AAT	p.D276N	CYP4X1_uc001cqr.2_Missense_Mutation_p.D275N|CYP4X1_uc001cqs.2_Missense_Mutation_p.D211N	NM_178033	NP_828847	Q8N118	CP4X1_HUMAN	cytochrome P450, family 4, subfamily X,	276						endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding			ovary(1)|skin(1)	2						GGTAAAGCAGGATAACACTCC	0.393													25	40	---	---	---	---	PASS
SLC5A9	200010	broad.mit.edu	37	1	48703480	48703480	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:48703480C>T	uc001cro.2	+	11	1474	c.1422C>T	c.(1420-1422)CTC>CTT	p.L474L	SLC5A9_uc010oms.1_RNA|SLC5A9_uc001crn.2_Silent_p.L499L|SLC5A9_uc010omt.1_Silent_p.L488L|SLC5A9_uc001crp.2_Silent_p.L141L|SLC5A9_uc010omu.1_Silent_p.L141L|SLC5A9_uc009vyt.1_5'Flank	NM_001011547	NP_001011547	Q2M3M2	SC5A9_HUMAN	solute carrier family 5 (sodium/glucose	474	Helical; (Potential).					integral to membrane|plasma membrane	low-affinity glucose:sodium symporter activity			ovary(3)	3						TCACCGCTCTCTTCCTGCTGG	0.502													15	19	---	---	---	---	PASS
SLC5A9	200010	broad.mit.edu	37	1	48713068	48713068	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:48713068G>A	uc001cro.2	+	14	1951	c.1899G>A	c.(1897-1899)CCG>CCA	p.P633P	SLC5A9_uc001crn.2_Silent_p.P658P|SLC5A9_uc010omt.1_Silent_p.P647P|SLC5A9_uc001crp.2_Silent_p.P300P|SLC5A9_uc010omu.1_Silent_p.P300P|SLC5A9_uc009vyt.1_RNA	NM_001011547	NP_001011547	Q2M3M2	SC5A9_HUMAN	solute carrier family 5 (sodium/glucose	633	Cytoplasmic (Potential).					integral to membrane|plasma membrane	low-affinity glucose:sodium symporter activity			ovary(3)	3						CTGGAACACCGGAGCAGGCCC	0.517													12	9	---	---	---	---	PASS
FAF1	11124	broad.mit.edu	37	1	51253660	51253660	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:51253660G>A	uc009vyx.1	-						FAF1_uc009vyw.1_Intron|FAF1_uc001cse.1_Intron	NM_007051	NP_008982	Q9UNN5	FAF1_HUMAN	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)		TTTATGGCAGGAAAAACCTTA	0.373													6	7	---	---	---	---	PASS
OSBPL9	114883	broad.mit.edu	37	1	52221985	52221985	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:52221985C>T	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|OSBPL9_uc001csy.2_Intron|OSBPL9_uc001csz.2_Intron|OSBPL9_uc001cta.2_Intron	NM_024586	NP_078862	Q96SU4	OSBL9_HUMAN	oxysterol binding protein-like 9 isoform e						lipid transport		lipid binding			central_nervous_system(1)	1						TAACATTTTTCCTTAAGGACC	0.318													11	17	---	---	---	---	PASS
ZFYVE9	9372	broad.mit.edu	37	1	52769498	52769498	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:52769498C>T	uc001cto.2	+	13	3511	c.3339C>T	c.(3337-3339)TTC>TTT	p.F1113F	ZFYVE9_uc001ctp.2_Silent_p.F1054F	NM_004799	NP_004790	O95405	ZFYV9_HUMAN	zinc finger, FYVE domain containing 9 isoform 3	1113					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						CCCAGGACTTCAGAAATTACC	0.353													18	40	---	---	---	---	PASS
CC2D1B	200014	broad.mit.edu	37	1	52824140	52824140	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:52824140G>A	uc001ctq.1	-						CC2D1B_uc001ctr.2_5'Flank|CC2D1B_uc001cts.2_Intron	NM_032449	NP_115825	Q5T0F9	C2D1B_HUMAN	coiled-coil and C2 domain containing 1B											ovary(2)	2						AATCCTGTGGGAGAGAGACAG	0.632													17	14	---	---	---	---	PASS
PODN	127435	broad.mit.edu	37	1	53544160	53544160	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:53544160G>A	uc001cuv.2	+	8	1129	c.1122G>A	c.(1120-1122)GCG>GCA	p.A374A	PODN_uc001cuw.2_Silent_p.A355A|PODN_uc010onr.1_Silent_p.A355A|PODN_uc010ons.1_Silent_p.A232A	NM_153703	NP_714914	Q7Z5L7	PODN_HUMAN	podocan	326	LRR 10.				negative regulation of cell migration|negative regulation of cell proliferation	cytoplasm|extracellular space|proteinaceous extracellular matrix	collagen binding			ovary(1)|pancreas(1)	2						GCGTGGACGCGAATGTGCTGA	0.612													4	23	---	---	---	---	PASS
PODN	127435	broad.mit.edu	37	1	53547779	53547779	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:53547779G>A	uc001cuv.2	+	10	1939	c.1932G>A	c.(1930-1932)GGG>GGA	p.G644G	PODN_uc001cuw.2_Silent_p.G625G|PODN_uc010onr.1_Silent_p.G625G|PODN_uc010ons.1_Silent_p.G502G	NM_153703	NP_714914	Q7Z5L7	PODN_HUMAN	podocan	596					negative regulation of cell migration|negative regulation of cell proliferation	cytoplasm|extracellular space|proteinaceous extracellular matrix	collagen binding			ovary(1)|pancreas(1)	2						GCCGCTTggggaaggaaaagg	0.398													6	12	---	---	---	---	PASS
C1orf83	127428	broad.mit.edu	37	1	54534537	54534537	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:54534537C>T	uc001cwt.1	+	3	411	c.211C>T	c.(211-213)CCC>TCC	p.P71S	C1orf83_uc001cwu.1_Intron	NM_153035	NP_694580	Q96MN5	TEAN2_HUMAN	hypothetical protein LOC127428	71	TFIIS N-terminal.				transcription, DNA-dependent	nucleus	DNA binding				0						GAAGAAAATACCCTCCAGGGA	0.333													4	29	---	---	---	---	PASS
MRPL37	51253	broad.mit.edu	37	1	54670798	54670798	+	Missense_Mutation	SNP	G	A	A	rs112294124		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:54670798G>A	uc001cxa.3	+	2	531	c.454G>A	c.(454-456)GAG>AAG	p.E152K	MRPL37_uc009vzp.2_Intron|MRPL37_uc001cxb.1_Missense_Mutation_p.E152K|MRPL37_uc001cxc.3_5'UTR|MRPL37_uc010oob.1_RNA	NM_016491	NP_057575	Q9BZE1	RM37_HUMAN	mitochondrial ribosomal protein L37 precursor	152					translation	mitochondrial ribosome	structural constituent of ribosome				0						GAACCAAGACGAGTGCGTTCT	0.507													30	39	---	---	---	---	PASS
C1orf175	374977	broad.mit.edu	37	1	55145664	55145664	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:55145664C>T	uc010ooe.1	+	13	2651	c.2327C>T	c.(2326-2328)TCC>TTC	p.S776F	C1orf175_uc001cxq.2_RNA|C1orf175_uc010ooc.1_Missense_Mutation_p.S344F|C1orf175_uc001cxs.2_RNA|C1orf175_uc010ood.1_Missense_Mutation_p.S294F|C1orf175_uc010oof.1_Intron|C1orf175_uc001cxr.1_Intron|C1orf175_uc010oog.1_Missense_Mutation_p.S776F|C1orf175_uc010ooh.1_RNA|C1orf175_uc009vzq.1_RNA|C1orf175_uc001cxt.1_RNA|C1orf175_uc009vzr.1_5'Flank	NM_001039464	NP_001034553	Q68CQ1	HEAT8_HUMAN	hypothetical protein LOC374977	776	Helical; (Potential).					integral to membrane	binding				0						CTGGCTAGCTCCTTCATGACC	0.602													15	77	---	---	---	---	PASS
C1orf175	374977	broad.mit.edu	37	1	55148321	55148321	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:55148321C>T	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_5'Flank	NM_001039464	NP_001034553	Q68CQ1	HEAT8_HUMAN	hypothetical protein LOC374977							integral to membrane	binding				0						ACATCCCTGACCTCTCAGCAA	0.557													37	60	---	---	---	---	PASS
C1orf175	374977	broad.mit.edu	37	1	55148322	55148322	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:55148322C>T	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_5'Flank	NM_001039464	NP_001034553	Q68CQ1	HEAT8_HUMAN	hypothetical protein LOC374977							integral to membrane	binding				0						CATCCCTGACCTCTCAGCAAT	0.557													36	62	---	---	---	---	PASS
PPAP2B	8613	broad.mit.edu	37	1	56962296	56962296	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:56962296G>A	uc001cyj.1	-	7	1364	c.863C>T	c.(862-864)GCC>GTC	p.A288V		NM_177414	NP_803133	O14495	LPP3_HUMAN	phosphatidic acid phosphatase type 2B	288	Cytoplasmic (Potential).				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						GATAGCAGGGGCAGGCAGGGA	0.493													15	25	---	---	---	---	PASS
DAB1	1600	broad.mit.edu	37	1	58521825	58521825	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:58521825G>A	uc001cys.1	-						DAB1_uc001cyt.1_Intron	NM_021080	NP_066566	O75553	DAB1_HUMAN	disabled homolog 1						cell differentiation|nervous system development					skin(2)|ovary(1)	3						TTTGGTGGGGGACGTGGGGCA	0.458													14	22	---	---	---	---	PASS
C1orf87	127795	broad.mit.edu	37	1	60499186	60499186	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:60499186C>T	uc001czs.1	-	7	1083	c.991G>A	c.(991-993)GAA>AAA	p.E331K		NM_152377	NP_689590	Q8N0U7	CA087_HUMAN	hypothetical protein LOC127795	331							calcium ion binding			ovary(1)|breast(1)	2						GAGCGATCTTCTTTTCGAAAA	0.443													18	41	---	---	---	---	PASS
INADL	10207	broad.mit.edu	37	1	62545165	62545165	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:62545165C>T	uc001dab.2	+	32	4283	c.4169C>T	c.(4168-4170)TCC>TTC	p.S1390F	INADL_uc009waf.1_Missense_Mutation_p.S1390F|INADL_uc001daa.2_Missense_Mutation_p.S1390F|INADL_uc001dad.3_Missense_Mutation_p.S1087F|INADL_uc001dac.2_RNA|INADL_uc010oot.1_Missense_Mutation_p.S174F|INADL_uc009wag.2_Missense_Mutation_p.S174F|INADL_uc010oou.1_Missense_Mutation_p.S63F|hsa-mir-3116-2|MI0014129_5'Flank	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like	1390					intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4						ACAAAAGTCTCCTTCAGTTCA	0.373													39	51	---	---	---	---	PASS
INADL	10207	broad.mit.edu	37	1	62550229	62550229	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:62550229C>T	uc001dab.2	+	33	4400	c.4286C>T	c.(4285-4287)CCC>CTC	p.P1429L	INADL_uc009waf.1_Missense_Mutation_p.P1429L|INADL_uc001daa.2_Missense_Mutation_p.P1429L|INADL_uc001dad.3_Missense_Mutation_p.P1126L|INADL_uc001dac.2_RNA|INADL_uc010oot.1_Missense_Mutation_p.P213L|INADL_uc009wag.2_Missense_Mutation_p.P213L|INADL_uc010oou.1_Missense_Mutation_p.P102L	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like	1429					intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4						GCAACGTGTCCCATTGTCCCT	0.507													21	20	---	---	---	---	PASS
KANK4	163782	broad.mit.edu	37	1	62747221	62747221	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:62747221C>T	uc001dah.3	-	2	393	c.16G>A	c.(16-18)GCC>ACC	p.A6T	KANK4_uc001dai.3_Missense_Mutation_p.E6K	NM_181712	NP_859063	Q5T7N3	KANK4_HUMAN	ankyrin repeat domain 38	6										ovary(3)|skin(2)|lung(1)	6						GCTTGCCTACCATCTGTCTTC	0.478													63	80	---	---	---	---	PASS
DOCK7	85440	broad.mit.edu	37	1	62943401	62943401	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:62943401G>A	uc001daq.2	-	43	5605	c.5571C>T	c.(5569-5571)ACC>ACT	p.T1857T	DOCK7_uc001dan.2_Silent_p.T1720T|DOCK7_uc001dao.2_Silent_p.T1718T|DOCK7_uc001dap.2_Silent_p.T1837T|DOCK7_uc001dam.2_Silent_p.T1039T|DOCK7_uc010oov.1_Silent_p.T598T|DOCK7_uc001dar.1_Silent_p.T31T	NM_033407	NP_212132	Q96N67	DOCK7_HUMAN	dedicator of cytokinesis 7	1868	DHR-2.				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						CTGCAAGTTTGGTTATTGCAG	0.388													36	64	---	---	---	---	PASS
DOCK7	85440	broad.mit.edu	37	1	63113907	63113907	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:63113907G>A	uc001daq.2	-	6	636	c.602C>T	c.(601-603)TCA>TTA	p.S201L	DOCK7_uc001dan.2_Missense_Mutation_p.S93L|DOCK7_uc001dao.2_Missense_Mutation_p.S93L|DOCK7_uc001dap.2_Missense_Mutation_p.S201L|DOCK7_uc009wah.1_Missense_Mutation_p.S201L	NM_033407	NP_212132	Q96N67	DOCK7_HUMAN	dedicator of cytokinesis 7	201					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						ATCAGGAAGTGAATTTTTCAA	0.393													23	40	---	---	---	---	PASS
ITGB3BP	23421	broad.mit.edu	37	1	63920139	63920139	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:63920139C>T	uc001dba.1	-	6	370	c.339G>A	c.(337-339)TTG>TTA	p.L113L	ITGB3BP_uc001dbb.1_Silent_p.L152L|ITGB3BP_uc001dbc.1_RNA|ITGB3BP_uc001dbd.1_RNA|ITGB3BP_uc009wak.1_Silent_p.L135L|ITGB3BP_uc001dbe.1_Silent_p.L26L	NM_014288	NP_055103	Q13352	CENPR_HUMAN	integrin beta 3 binding protein	113	Potential.				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						TACTGCCCTCCAAAGCCTACA	0.343													15	21	---	---	---	---	PASS
PGM1	5236	broad.mit.edu	37	1	64089186	64089186	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:64089186C>T	uc001dbh.2	+						PGM1_uc010ooy.1_Intron|PGM1_uc010ooz.1_Missense_Mutation_p.P19S	NM_002633	NP_002624	P36871	PGM1_HUMAN	phosphoglucomutase 1						cellular calcium ion homeostasis|galactose catabolic process|glucose 1-phosphate metabolic process|glycogen biosynthetic process|glycogen catabolic process	cytosol	magnesium ion binding|phosphoglucomutase activity			ovary(2)|kidney(1)	3						GGAAGAAGGTCCTCTCCCTCT	0.443													56	102	---	---	---	---	PASS
CACHD1	57685	broad.mit.edu	37	1	65131840	65131840	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:65131840C>T	uc001dbo.1	+	16	2329	c.2224C>T	c.(2224-2226)CAT>TAT	p.H742Y	CACHD1_uc001dbp.1_Missense_Mutation_p.H497Y|CACHD1_uc001dbq.1_Missense_Mutation_p.H497Y|CACHD1_uc010opa.1_5'UTR	NM_020925	NP_065976	Q5VU97	CAHD1_HUMAN	cache domain containing 1	793	Extracellular (Potential).|Cache 2.				calcium ion transport	integral to membrane				ovary(2)	2						TCACACAATTCATTCATCCAG	0.328													12	25	---	---	---	---	PASS
JAK1	3716	broad.mit.edu	37	1	65310570	65310570	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:65310570C>T	uc001dbu.1	-	16	2367	c.2118G>A	c.(2116-2118)GAG>GAA	p.E706E	JAK1_uc009wam.1_Silent_p.E694E|JAK1_uc009wal.1_5'UTR	NM_002227	NP_002218	P23458	JAK1_HUMAN	janus kinase 1	706	Protein 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)		GGTCTTTATCCTCCTGCAGAG	0.507			Mis		ALL								5	36	---	---	---	---	PASS
SGIP1	84251	broad.mit.edu	37	1	67099798	67099798	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:67099798C>T	uc001dcr.2	+							NM_032291	NP_115667	Q9BQI5	SGIP1_HUMAN	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						CTCAGCTTCTCCTCACCTCTT	0.463													4	15	---	---	---	---	PASS
WDR78	79819	broad.mit.edu	37	1	67292639	67292639	+	Nonsense_Mutation	SNP	C	A	A	rs145334513		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:67292639C>A	uc001dcx.2	-	15	2259	c.2203G>T	c.(2203-2205)GAG>TAG	p.E735*	WDR78_uc009waw.2_Nonsense_Mutation_p.E448*|WDR78_uc009wax.2_RNA	NM_024763	NP_079039	Q5VTH9	WDR78_HUMAN	WD repeat domain 78 isoform 1	735	WD 4.									ovary(2)	2						TTGACATTCTCCTGTTGCCAT	0.378													27	85	---	---	---	---	PASS
IL12RB2	3595	broad.mit.edu	37	1	67792445	67792445	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:67792445C>T	uc001ddu.2	+	4	1032	c.392C>T	c.(391-393)TCC>TTC	p.S131F	IL12RB2_uc010oqi.1_Missense_Mutation_p.S131F|IL12RB2_uc010oqj.1_Missense_Mutation_p.S131F|IL12RB2_uc010oqk.1_RNA|IL12RB2_uc010oql.1_Missense_Mutation_p.S131F|IL12RB2_uc010oqm.1_Missense_Mutation_p.S131F|IL12RB2_uc010oqn.1_RNA	NM_001559	NP_001550	Q99665	I12R2_HUMAN	interleukin 12 receptor, beta 2 precursor	131	Extracellular (Potential).|Fibronectin type-III 1.				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						CAAAATTTATCCTGCATACAG	0.428													5	9	---	---	---	---	PASS
IL12RB2	3595	broad.mit.edu	37	1	67833507	67833507	+	Splice_Site	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:67833507G>A	uc001ddu.2	+	10	1899	c.1259_splice	c.e10-1	p.G420_splice	IL12RB2_uc010oqi.1_Splice_Site_p.G420_splice|IL12RB2_uc010oqj.1_Splice_Site_p.G420_splice|IL12RB2_uc010oqk.1_Splice_Site|IL12RB2_uc010oql.1_Splice_Site_p.G420_splice|IL12RB2_uc010oqm.1_Splice_Site_p.G420_splice|IL12RB2_uc010oqn.1_Splice_Site	NM_001559	NP_001550	Q99665	I12R2_HUMAN	interleukin 12 receptor, beta 2 precursor						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						GTCCGATAAAGGGTTGCTGGC	0.443													24	75	---	---	---	---	PASS
LRRC7	57554	broad.mit.edu	37	1	70505069	70505069	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:70505069G>A	uc001dep.2	+	19	3478	c.3448G>A	c.(3448-3450)GGA>AGA	p.G1150R	LRRC7_uc009wbg.2_Missense_Mutation_p.G434R|LRRC7_uc001deq.2_Missense_Mutation_p.G391R	NM_020794	NP_065845	Q96NW7	LRRC7_HUMAN	leucine rich repeat containing 7	1150						centrosome|focal adhesion|nucleolus	protein binding			ovary(9)|breast(2)|central_nervous_system(2)|liver(1)	14						CCCATATAGGGGAGGGCTGGA	0.522													18	29	---	---	---	---	PASS
NEGR1	257194	broad.mit.edu	37	1	71873261	71873261	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:71873261G>A	uc001dfw.2	-						NEGR1_uc001dfv.2_Intron|NEGR1_uc010oqs.1_Intron	NM_173808	NP_776169	Q7Z3B1	NEGR1_HUMAN	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)		GAGCTGGAAAGAAATGGAAAA	0.333													16	24	---	---	---	---	PASS
NEGR1	257194	broad.mit.edu	37	1	72076747	72076747	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:72076747C>T	uc001dfw.2	-	5	850	c.750G>A	c.(748-750)GTG>GTA	p.V250V	NEGR1_uc001dfv.2_Silent_p.V122V|NEGR1_uc010oqs.1_Silent_p.V206V	NM_173808	NP_776169	Q7Z3B1	NEGR1_HUMAN	neuronal growth regulator 1 precursor	250	Ig-like C2-type 3.				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)		CTGGAGGCGGCACACCTGCAC	0.463													11	49	---	---	---	---	PASS
LRRIQ3	127255	broad.mit.edu	37	1	74492584	74492584	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:74492584G>A	uc001dfy.3	-	8	1980	c.1788C>T	c.(1786-1788)GCC>GCT	p.A596A	LRRIQ3_uc001dfz.3_RNA	NM_001105659	NP_001099129	A6PVS8	LRIQ3_HUMAN	leucine-rich repeats and IQ motif containing 3	596	Potential.									ovary(2)	2						GTCTTTCACAGGCTTTTTCAA	0.303													9	16	---	---	---	---	PASS
FPGT	8790	broad.mit.edu	37	1	74670360	74670360	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:74670360C>T	uc001dgb.1	+	4	666	c.629C>T	c.(628-630)CCT>CTT	p.P210L	TNNI3K_uc001dgc.1_Intron|TNNI3K_uc001dgd.2_Intron|TNNI3K_uc001dge.1_Intron|FPGT_uc010oqt.1_Intron|FPGT_uc010oqu.1_Intron|FPGT_uc010oqv.1_Intron	NM_003838	NP_003829	O14772	FPGT_HUMAN	fucose-1-phosphate guanyltransferase	210					fucose metabolic process	cytoplasm	fucose-1-phosphate guanylyltransferase activity|GTP binding			skin(1)	1						GTCTTAGATCCTTTTGATGAT	0.373													11	43	---	---	---	---	PASS
C1orf173	127254	broad.mit.edu	37	1	75072544	75072544	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:75072544C>T	uc001dgg.2	-	10	1449	c.1230G>A	c.(1228-1230)CCG>CCA	p.P410P	uc001dgh.2_Intron|C1orf173_uc001dgi.3_Silent_p.P204P	NM_001002912	NP_001002912	Q5RHP9	CA173_HUMAN	hypothetical protein LOC127254	410										ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)	5						TCCTAGATTTCGGCAAAGACG	0.413													12	63	---	---	---	---	PASS
MSH4	4438	broad.mit.edu	37	1	76344772	76344772	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:76344772A>T	uc001dhd.1	+	12	1677	c.1636A>T	c.(1636-1638)ATA>TTA	p.I546L		NM_002440	NP_002431	O15457	MSH4_HUMAN	mutS homolog 4	546					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						TACAGATTGTATAGCCCTACC	0.338								MMR					14	29	---	---	---	---	PASS
MSH4	4438	broad.mit.edu	37	1	76365359	76365359	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:76365359G>A	uc001dhd.1	+	19	2628	c.2587G>A	c.(2587-2589)GAA>AAA	p.E863K		NM_002440	NP_002431	O15457	MSH4_HUMAN	mutS homolog 4	863					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						GGATGCCAAGGAAATCACAAC	0.294								MMR					16	37	---	---	---	---	PASS
ST6GALNAC3	256435	broad.mit.edu	37	1	76877855	76877855	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:76877855C>T	uc001dhh.2	+	3	539	c.376C>T	c.(376-378)CGA>TGA	p.R126*	ST6GALNAC3_uc001dhg.3_Nonsense_Mutation_p.R126*|ST6GALNAC3_uc010orh.1_Nonsense_Mutation_p.R61*	NM_152996	NP_694541	Q8NDV1	SIA7C_HUMAN	sialyltransferase 7C isoform 1	126	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane	sialyltransferase activity			ovary(3)|skin(2)	5						GACCATGATTCGAGTTGTGTC	0.433													18	44	---	---	---	---	PASS
ST6GALNAC3	256435	broad.mit.edu	37	1	76877969	76877969	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:76877969G>A	uc001dhh.2	+	3	653	c.490G>A	c.(490-492)GAT>AAT	p.D164N	ST6GALNAC3_uc001dhg.3_Missense_Mutation_p.D164N|ST6GALNAC3_uc010orh.1_Missense_Mutation_p.D99N	NM_152996	NP_694541	Q8NDV1	SIA7C_HUMAN	sialyltransferase 7C isoform 1	164	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane	sialyltransferase activity			ovary(3)|skin(2)	5						TATGAGGAAAGATGGCAATGG	0.393													20	61	---	---	---	---	PASS
USP33	23032	broad.mit.edu	37	1	78184286	78184286	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:78184286G>A	uc001dht.2	-	17	2172	c.1825C>T	c.(1825-1827)CCT>TCT	p.P609S	USP33_uc001dhs.2_Missense_Mutation_p.P330S|USP33_uc001dhu.2_Missense_Mutation_p.P578S|USP33_uc001dhv.2_Missense_Mutation_p.P414S|USP33_uc001dhw.2_Missense_Mutation_p.P601S	NM_015017	NP_055832	Q8TEY7	UBP33_HUMAN	ubiquitin specific protease 33 isoform 1	609					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						CATACCTCAGGAAAGTTTTGT	0.284													9	20	---	---	---	---	PASS
IFI44L	10964	broad.mit.edu	37	1	79107150	79107150	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:79107150C>T	uc010oro.1	+	8	1359	c.1180C>T	c.(1180-1182)CCT>TCT	p.P394S	IFI44L_uc010orp.1_Missense_Mutation_p.P131S|IFI44L_uc010orq.1_Missense_Mutation_p.P131S	NM_006820	NP_006811	Q53G44	IF44L_HUMAN	interferon-induced protein 44-like	394						cytoplasm					0						GCTAGGCATTCCTATTTCCAA	0.353													13	41	---	---	---	---	PASS
IFI44	10561	broad.mit.edu	37	1	79128453	79128453	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:79128453C>T	uc001dip.3	+	8	1302	c.1178C>T	c.(1177-1179)TCC>TTC	p.S393F		NM_006417	NP_006408	Q8TCB0	IFI44_HUMAN	interferon-induced, hepatitis C-associated	393					response to virus	cytoplasm				ovary(1)|central_nervous_system(1)	2						AGCAATTATTCCTCTGAGTGG	0.413													18	29	---	---	---	---	PASS
ELTD1	64123	broad.mit.edu	37	1	79470895	79470895	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:79470895G>A	uc001diq.3	-	2	188	c.32C>T	c.(31-33)TCC>TTC	p.S11F		NM_022159	NP_071442	Q9HBW9	ELTD1_HUMAN	EGF, latrophilin and seven transmembrane domain	11					neuropeptide signaling pathway	integral to membrane|plasma membrane	calcium ion binding|G-protein coupled receptor activity			ovary(1)|skin(1)	2				COAD - Colon adenocarcinoma(225;0.0905)|Colorectal(170;0.103)|all cancers(265;0.105)|Epithelial(280;0.148)		CAACAAAGTGGAAAAAACCAC	0.323													12	10	---	---	---	---	PASS
DNASE2B	58511	broad.mit.edu	37	1	84880230	84880230	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:84880230G>A	uc001djt.1	+	6	798	c.765G>A	c.(763-765)ATG>ATA	p.M255I	DNASE2B_uc001dju.1_Missense_Mutation_p.M47I|DNASE2B_uc009wch.1_Missense_Mutation_p.M47I	NM_021233	NP_067056	Q8WZ79	DNS2B_HUMAN	deoxyribonuclease II beta isoform 1 precursor	255					DNA metabolic process	lysosome	deoxyribonuclease II activity				0				all cancers(265;0.00303)|Epithelial(280;0.0112)|OV - Ovarian serous cystadenocarcinoma(397;0.0808)		CAGCCTGGATGGCTCAACGGC	0.418								Direct_reversal_of_damage					7	30	---	---	---	---	PASS
DNASE2B	58511	broad.mit.edu	37	1	84880305	84880305	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:84880305C>T	uc001djt.1	+	6	873	c.840C>T	c.(838-840)TCC>TCT	p.S280S	DNASE2B_uc001dju.1_Silent_p.S72S|DNASE2B_uc009wch.1_Silent_p.S72S	NM_021233	NP_067056	Q8WZ79	DNS2B_HUMAN	deoxyribonuclease II beta isoform 1 precursor	280					DNA metabolic process	lysosome	deoxyribonuclease II activity				0				all cancers(265;0.00303)|Epithelial(280;0.0112)|OV - Ovarian serous cystadenocarcinoma(397;0.0808)		CAAACTGCTCCCTTCCTTACC	0.418								Direct_reversal_of_damage					12	33	---	---	---	---	PASS
CTBS	1486	broad.mit.edu	37	1	85029067	85029067	+	Missense_Mutation	SNP	C	A	A	rs148118320	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:85029067C>A	uc001dka.2	-	6	895	c.830G>T	c.(829-831)CGG>CTG	p.R277L	SPATA1_uc001djz.1_Intron|CTBS_uc001dkc.2_Missense_Mutation_p.R186L|CTBS_uc001dkd.2_Missense_Mutation_p.R71L|CTBS_uc001dkb.2_Missense_Mutation_p.R71L	NM_004388	NP_004379	Q01459	DIAC_HUMAN	chitobiase, di-N-acetyl- precursor	277						lysosome	cation binding				0				all cancers(265;0.00727)|Epithelial(280;0.0192)|OV - Ovarian serous cystadenocarcinoma(397;0.166)		AGGAGCCCCCCGGAAAGGGAC	0.388													3	29	---	---	---	---	PASS
MCOLN3	55283	broad.mit.edu	37	1	85486956	85486956	+	Missense_Mutation	SNP	G	A	A	rs139077973		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:85486956G>A	uc001dkp.2	-	12	1417	c.1324C>T	c.(1324-1326)CGT>TGT	p.R442C	MCOLN3_uc001dko.2_Missense_Mutation_p.R61C|MCOLN3_uc001dkq.2_Missense_Mutation_p.R386C	NM_018298	NP_060768	Q8TDD5	MCLN3_HUMAN	mucolipin 3	442						integral to membrane	ion channel activity			skin(1)	1				all cancers(265;0.00957)|Epithelial(280;0.0254)		TTCAGAGAACGAAACTGGAAA	0.368													17	36	---	---	---	---	PASS
COL24A1	255631	broad.mit.edu	37	1	86578314	86578314	+	Intron	SNP	C	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:86578314C>G	uc001dlj.2	-						COL24A1_uc010osd.1_Intron|COL24A1_uc001dlk.2_Intron|COL24A1_uc010ose.1_Intron|COL24A1_uc010osf.1_Intron|COL24A1_uc009wcq.2_Intron	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	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)		CTGCAAGTAACGAAAAAAGTC	0.408													5	39	---	---	---	---	PASS
COL24A1	255631	broad.mit.edu	37	1	86590982	86590982	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:86590982T>A	uc001dlj.2	-	3	1079	c.1037A>T	c.(1036-1038)AAT>ATT	p.N346I	COL24A1_uc010osd.1_5'UTR|COL24A1_uc001dlk.2_RNA|COL24A1_uc010ose.1_RNA|COL24A1_uc010osf.1_RNA|COL24A1_uc009wcq.2_Missense_Mutation_p.N346I	NM_152890	NP_690850	Q17RW2	COOA1_HUMAN	collagen, type XXIV, alpha 1 precursor	346					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)		CAGGCTGAAATTTGTCTGAGT	0.413													20	33	---	---	---	---	PASS
ODF2L	57489	broad.mit.edu	37	1	86824577	86824577	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:86824577G>A	uc001dll.1	-						ODF2L_uc001dlm.1_Intron|ODF2L_uc001dln.2_Intron|ODF2L_uc001dlo.2_Intron|ODF2L_uc001dlp.2_Intron|ODF2L_uc010osg.1_Intron|ODF2L_uc001dlq.1_Intron	NM_020729	NP_065780	Q9ULJ1	ODF2L_HUMAN	outer dense fiber of sperm tails 2-like isoform							centrosome				ovary(1)	1				all cancers(265;0.0313)|Epithelial(280;0.0611)		TTTTGTACCTGAAAATAAAGT	0.219													4	9	---	---	---	---	PASS
CLCA4	22802	broad.mit.edu	37	1	87025765	87025765	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:87025765G>A	uc009wcs.2	+						CLCA4_uc009wct.2_Intron|CLCA4_uc009wcu.2_Intron	NM_012128	NP_036260	Q14CN2	CLCA4_HUMAN	chloride channel accessory 4							apical plasma membrane|extracellular region|integral to plasma membrane	chloride channel activity			ovary(2)	2		Lung NSC(277;0.238)		all cancers(265;0.0202)|Epithelial(280;0.0404)		TGTAAGTGTCGAAATATTCTC	0.239													8	19	---	---	---	---	PASS
HFM1	164045	broad.mit.edu	37	1	91843989	91843989	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:91843989G>A	uc001doa.3	-	10	1307	c.1207C>T	c.(1207-1209)CAG>TAG	p.Q403*	HFM1_uc010osu.1_Nonsense_Mutation_p.Q82*|HFM1_uc010osv.1_Nonsense_Mutation_p.Q87*|HFM1_uc001doc.1_Nonsense_Mutation_p.Q403*	NM_001017975	NP_001017975	A2PYH4	HFM1_HUMAN	HFM1 protein	403	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)		CGAACCAGCTGAACCAAAGAG	0.328													17	48	---	---	---	---	PASS
TGFBR3	7049	broad.mit.edu	37	1	92185653	92185653	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:92185653G>A	uc001doh.2	-	9	1676	c.1210C>T	c.(1210-1212)CCT>TCT	p.P404S	TGFBR3_uc009wde.2_Missense_Mutation_p.P181S|TGFBR3_uc010osy.1_Missense_Mutation_p.P362S|TGFBR3_uc001doi.2_Missense_Mutation_p.P403S|TGFBR3_uc001doj.2_Missense_Mutation_p.P403S	NM_003243	NP_003234	Q03167	TGBR3_HUMAN	transforming growth factor, beta receptor III	404	Extracellular (Potential).				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)		TCTGGGAAAGGAAACGGAAGG	0.587													19	17	---	---	---	---	PASS
BRDT	676	broad.mit.edu	37	1	92442942	92442942	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:92442942A>G	uc001dok.3	+	6	1310	c.961A>G	c.(961-963)ACT>GCT	p.T321A	BRDT_uc001dol.3_Missense_Mutation_p.T321A|BRDT_uc010osz.1_Missense_Mutation_p.T325A|BRDT_uc009wdf.2_Missense_Mutation_p.T248A|BRDT_uc010ota.1_Missense_Mutation_p.T275A|BRDT_uc010otb.1_Missense_Mutation_p.T275A|BRDT_uc001dom.3_Missense_Mutation_p.T321A	NM_207189	NP_997072	Q58F21	BRDT_HUMAN	testis-specific bromodomain protein	321	Bromo 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	protein serine/threonine kinase activity|transcription coactivator activity			stomach(2)|ovary(1)|lung(1)	4		all_lung(203;0.00531)|Lung NSC(277;0.0194)		all cancers(265;0.0228)|Epithelial(280;0.133)		GGATCTTGGAACTATTAAGGT	0.244													20	35	---	---	---	---	PASS
EPHX4	253152	broad.mit.edu	37	1	92498145	92498145	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:92498145C>T	uc001don.2	+	2	419	c.315C>T	c.(313-315)TTC>TTT	p.F105F		NM_173567	NP_775838	Q8IUS5	EPHX4_HUMAN	abhydrolase domain containing 7	105						integral to membrane	hydrolase activity			central_nervous_system(1)	1						TTCCAGAATTCTGGTAAGCTT	0.289													17	33	---	---	---	---	PASS
C1orf146	388649	broad.mit.edu	37	1	92707867	92707867	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:92707867G>A	uc001doq.2	+						C1orf146_uc010ote.1_Intron	NM_001012425	NP_001012425	Q5VVC0	CA146_HUMAN	hypothetical protein LOC388649											ovary(1)	1		all_lung(203;0.00528)|Lung NSC(277;0.0193)		all cancers(265;0.00846)|Epithelial(280;0.0952)		TTTCTGGTATGGTATATTTGC	0.323													16	25	---	---	---	---	PASS
EVI5	7813	broad.mit.edu	37	1	92979373	92979373	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:92979373G>A	uc001dox.2	-	18	2283	c.2273C>T	c.(2272-2274)CCT>CTT	p.P758L	EVI5_uc010otf.1_Missense_Mutation_p.P769L	NM_005665	NP_005656	O60447	EVI5_HUMAN	ecotropic viral integration site 5	758	Targeting to the centrosomes.|Interaction with AURKB and INCENP.				cell cycle|cell division|cell proliferation|multicellular organismal development	microtubule organizing center|nucleus|spindle	protein binding|Rab GTPase activator activity			ovary(1)|breast(1)	2		all_lung(203;0.00146)|Lung NSC(277;0.00565)|all_neural(321;0.185)|Melanoma(281;0.193)|Glioma(108;0.203)		Epithelial(280;8.09e-25)|OV - Ovarian serous cystadenocarcinoma(397;1.27e-22)|all cancers(265;1.74e-21)|GBM - Glioblastoma multiforme(16;0.00233)|BRCA - Breast invasive adenocarcinoma(282;0.211)		TCCGTGCAAAGGAAAACCAAC	0.438													28	34	---	---	---	---	PASS
CCDC18	343099	broad.mit.edu	37	1	93724345	93724345	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:93724345C>T	uc001dpq.2	+	26	4109	c.3941C>T	c.(3940-3942)TCT>TTT	p.S1314F	CCDC18_uc001dpr.1_Missense_Mutation_p.S109F	NM_206886	NP_996769	Q5T9S5	CCD18_HUMAN	sarcoma antigen NY-SAR-41	1195	Potential.									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)		CTGGGGGCTTCTAAAGTACGT	0.343													22	31	---	---	---	---	PASS
DPYD	1806	broad.mit.edu	37	1	97547898	97547898	+	Silent	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:97547898A>G	uc001drv.2	-	22	3032	c.2895T>C	c.(2893-2895)GAT>GAC	p.D965D		NM_000110	NP_000101	Q12882	DPYD_HUMAN	dihydropyrimidine dehydrogenase isoform 1	965	4Fe-4S ferredoxin-type 2.				'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)	GGTAGCCAGAATCATTACAGG	0.383													29	57	---	---	---	---	PASS
DPYD	1806	broad.mit.edu	37	1	98015267	98015267	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:98015267C>T	uc001drv.2	-	12	1510	c.1373G>A	c.(1372-1374)AGA>AAA	p.R458K		NM_000110	NP_000101	Q12882	DPYD_HUMAN	dihydropyrimidine dehydrogenase isoform 1	458					'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)	GAGACCCCATCTGTTAAATTT	0.373													8	23	---	---	---	---	PASS
DPYD	1806	broad.mit.edu	37	1	98058779	98058779	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:98058779C>T	uc001drv.2	-	10	1260	c.1123G>A	c.(1123-1125)GAG>AAG	p.E375K		NM_000110	NP_000101	Q12882	DPYD_HUMAN	dihydropyrimidine dehydrogenase isoform 1	375					'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)	TTTACCTCCTCAGGGACAGCT	0.403													29	34	---	---	---	---	PASS
SNX7	51375	broad.mit.edu	37	1	99150492	99150492	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:99150492C>T	uc010ouc.1	+	2	284	c.232C>T	c.(232-234)CCT>TCT	p.P78S	SNX7_uc001dsa.2_Missense_Mutation_p.P14S|SNX7_uc010oud.1_Missense_Mutation_p.P78S	NM_015976	NP_057060	Q9UNH6	SNX7_HUMAN	sorting nexin 7 isoform a	14					cell communication|protein transport	cytoplasmic vesicle membrane	phosphatidylinositol binding|protein binding			ovary(2)|haematopoietic_and_lymphoid_tissue(1)	3		all_epithelial(167;7.64e-07)|all_lung(203;0.0006)|Lung NSC(277;0.00137)		Epithelial(280;0.0521)|all cancers(265;0.0687)|COAD - Colon adenocarcinoma(174;0.15)|Lung(183;0.207)|Colorectal(170;0.234)		GCCAACATCCCCTTTATCAAT	0.338													13	25	---	---	---	---	PASS
PALMD	54873	broad.mit.edu	37	1	100111912	100111912	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:100111912C>T	uc001dsg.2	+	1	482	c.39C>T	c.(37-39)GCC>GCT	p.A13A	PALMD_uc001dsf.2_Silent_p.A13A	NM_017734	NP_060204	Q9NP74	PALMD_HUMAN	palmdelphin	13	Potential.				regulation of cell shape	cytoplasm|membrane				ovary(2)|pancreas(1)	3		all_epithelial(167;0.000813)|all_lung(203;0.0214)|Lung NSC(277;0.0216)		Epithelial(280;0.067)|all cancers(265;0.117)|COAD - Colon adenocarcinoma(174;0.142)|Lung(183;0.201)		GACTCCAGGCCATCACAGTAA	0.517													24	34	---	---	---	---	PASS
SASS6	163786	broad.mit.edu	37	1	100587028	100587028	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:100587028G>A	uc001dsu.2	-	5	530	c.389C>T	c.(388-390)CCT>CTT	p.P130L	SASS6_uc009wdz.2_5'UTR	NM_194292	NP_919268	Q6UVJ0	SAS6_HUMAN	spindle assembly abnormal protein 6	130					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)		ATGCTTAAAAGGATTTGTCTC	0.348													7	17	---	---	---	---	PASS
OLFM3	118427	broad.mit.edu	37	1	102270080	102270080	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:102270080C>T	uc001duf.2	-	6	1222	c.1151G>A	c.(1150-1152)AGC>AAC	p.S384N	OLFM3_uc001dug.2_Missense_Mutation_p.S364N|OLFM3_uc001duh.2_RNA|OLFM3_uc001dui.2_RNA|OLFM3_uc001duj.2_Missense_Mutation_p.S289N|OLFM3_uc001due.2_RNA	NM_058170	NP_477518	Q96PB7	NOE3_HUMAN	olfactomedin 3	384	Olfactomedin-like.					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)		AGTGCTCCAGCTCTTCATCAC	0.488													5	31	---	---	---	---	PASS
COL11A1	1301	broad.mit.edu	37	1	103400031	103400031	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:103400031C>T	uc001dul.2	-	46	3892	c.3574G>A	c.(3574-3576)GGA>AGA	p.G1192R	COL11A1_uc001duk.2_Missense_Mutation_p.G388R|COL11A1_uc001dum.2_Missense_Mutation_p.G1204R|COL11A1_uc001dun.2_Missense_Mutation_p.G1153R|COL11A1_uc009weh.2_Missense_Mutation_p.G1076R	NM_001854	NP_001845	P12107	COBA1_HUMAN	alpha 1 type XI collagen isoform A	1192	Triple-helical region.				collagen fibril organization|detection of mechanical stimulus involved in sensory perception of sound|visual perception	collagen type XI	extracellular matrix binding|extracellular matrix structural constituent|protein binding, bridging			ovary(6)|breast(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	12		all_epithelial(167;2.52e-07)|all_lung(203;3.11e-05)|Lung NSC(277;6.61e-05)|Breast(1374;0.181)		Lung(183;0.186)|all cancers(265;0.242)|Epithelial(280;0.248)		CCAGGAGGTCCAGGGAAGCCT	0.483													6	20	---	---	---	---	PASS
AMY1A	276	broad.mit.edu	37	1	104297236	104297236	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:104297236G>A	uc001duy.2	+	7	1208	c.994G>A	c.(994-996)GAT>AAT	p.D332N	AMY1A_uc001duz.2_Missense_Mutation_p.D332N	NM_001008221	NP_001008222	P04745	AMY1_HUMAN	salivary amylase alpha 1A precursor	332					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)		TACCTTCTGGGATGCTAGGTA	0.383													32	587	---	---	---	---	PASS
NTNG1	22854	broad.mit.edu	37	1	107938085	107938085	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:107938085C>T	uc001dvh.3	+						NTNG1_uc001dvf.3_Intron|NTNG1_uc010out.1_Intron|NTNG1_uc001dvc.3_Intron|NTNG1_uc001dvi.2_Intron|NTNG1_uc001dve.2_Intron|NTNG1_uc009wek.2_Intron|NTNG1_uc001dvg.2_Intron|NTNG1_uc009wem.2_Intron|NTNG1_uc001dvd.1_Intron	NM_001113226	NP_001106697	Q9Y2I2	NTNG1_HUMAN	netrin G1 isoform 1						axonogenesis	anchored to plasma membrane	protein binding			large_intestine(2)|ovary(2)|skin(2)	6		all_epithelial(167;1.39e-05)|all_lung(203;0.000115)|Lung NSC(277;0.000238)|Breast(1374;0.243)		Lung(183;0.0946)|BRCA - Breast invasive adenocarcinoma(282;0.237)|Epithelial(280;0.245)		AAGTTTCAGTCCCTATCTTAC	0.358													45	97	---	---	---	---	PASS
VAV3	10451	broad.mit.edu	37	1	108315477	108315477	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:108315477G>A	uc001dvk.1	-						VAV3_uc010ouw.1_Intron|VAV3_uc001dvl.1_Intron|VAV3_uc010oux.1_Intron	NM_006113	NP_006104	Q9UKW4	VAV3_HUMAN	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)		TACAACAAAGGATATCATATA	0.343													8	29	---	---	---	---	PASS
CELSR2	1952	broad.mit.edu	37	1	109793891	109793891	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:109793891C>T	uc001dxa.3	+	1	1251	c.1190C>T	c.(1189-1191)CCC>CTC	p.P397L		NM_001408	NP_001399	Q9HCU4	CELR2_HUMAN	cadherin EGF LAG seven-pass G-type receptor 2	397	Cadherin 2.|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)		GATAATGCCCCCCAGTTTAGT	0.592													9	28	---	---	---	---	PASS
SYPL2	284612	broad.mit.edu	37	1	110020428	110020428	+	Intron	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:110020428T>C	uc001dxp.2	+						SYPL2_uc001dxo.2_Intron|SYPL2_uc010ovk.1_Intron|SYPL2_uc001dxq.2_Intron	NM_001040709	NP_001035799	Q5VXT5	SYPL2_HUMAN	mitsugumin 29							integral to membrane|synaptic vesicle	transporter activity			ovary(1)	1		all_epithelial(167;2.83e-05)|all_lung(203;0.00016)|Lung NSC(277;0.000318)|Breast(1374;0.244)		Colorectal(144;0.0129)|Lung(183;0.0436)|READ - Rectum adenocarcinoma(129;0.0698)|Epithelial(280;0.0808)|all cancers(265;0.0869)|LUSC - Lung squamous cell carcinoma(189;0.231)		CCCATCCCTCTGCTCCTCCCA	0.567													15	17	---	---	---	---	PASS
FAM40A	85369	broad.mit.edu	37	1	110589365	110589365	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:110589365C>T	uc001dza.1	+	13	1499	c.1480C>T	c.(1480-1482)CTC>TTC	p.L494F	FAM40A_uc001dyz.1_Missense_Mutation_p.L399F|FAM40A_uc009wfp.1_Missense_Mutation_p.L318F	NM_033088	NP_149079	Q5VSL9	FA40A_HUMAN	hypothetical protein LOC85369	494						nucleus	protein binding			ovary(3)|large_intestine(1)	4		all_cancers(81;8.51e-05)|all_epithelial(167;3.58e-05)|all_lung(203;0.000116)|Lung NSC(277;0.000233)		Lung(183;0.0154)|all cancers(265;0.0732)|Epithelial(280;0.0781)|Colorectal(144;0.115)|LUSC - Lung squamous cell carcinoma(189;0.137)		CCGCTCCCCTCTCTCAGGGGT	0.358													20	69	---	---	---	---	PASS
SLC6A17	388662	broad.mit.edu	37	1	110717573	110717573	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:110717573C>T	uc009wfq.2	+	5	1205	c.744C>T	c.(742-744)TCC>TCT	p.S248S		NM_001010898	NP_001010898	Q9H1V8	S6A17_HUMAN	solute carrier family 6, member 17	248	Cytoplasmic (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)		GCATCCAGTCCTCGGGGAAGG	0.612													6	20	---	---	---	---	PASS
CD53	963	broad.mit.edu	37	1	111439345	111439345	+	Missense_Mutation	SNP	G	A	A	rs150734121	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:111439345G>A	uc001dzw.2	+	7	665	c.494G>A	c.(493-495)CGA>CAA	p.R165Q	CD53_uc001dzx.2_Missense_Mutation_p.R165Q|CD53_uc010owa.1_Intron|CD53_uc001dzy.2_Intron	NM_001040033	NP_001035122	P19397	CD53_HUMAN	CD53 antigen	165	Extracellular (Potential).				signal transduction	integral to membrane|plasma membrane					0		all_cancers(81;1.06e-05)|all_epithelial(167;1.95e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Lung(183;0.0264)|Colorectal(144;0.0375)|all cancers(265;0.11)|Epithelial(280;0.114)|COAD - Colon adenocarcinoma(174;0.141)|LUSC - Lung squamous cell carcinoma(189;0.144)		CCCTCAGATCGAAAAGTGGAG	0.443													22	50	---	---	---	---	PASS
CD53	963	broad.mit.edu	37	1	111440442	111440442	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:111440442G>A	uc001dzw.2	+	8	687	c.516G>A	c.(514-516)GCG>GCA	p.A172A	CD53_uc001dzx.2_Silent_p.A172A|CD53_uc010owa.1_Silent_p.A113A|CD53_uc001dzy.2_Intron	NM_001040033	NP_001035122	P19397	CD53_HUMAN	CD53 antigen	172	Extracellular (Potential).				signal transduction	integral to membrane|plasma membrane					0		all_cancers(81;1.06e-05)|all_epithelial(167;1.95e-05)|all_lung(203;0.000199)|Lung NSC(277;0.000398)		Lung(183;0.0264)|Colorectal(144;0.0375)|all cancers(265;0.11)|Epithelial(280;0.114)|COAD - Colon adenocarcinoma(174;0.141)|LUSC - Lung squamous cell carcinoma(189;0.144)		GTTGCTATGCGAAAGCAAGAC	0.328													15	35	---	---	---	---	PASS
C1orf103	55791	broad.mit.edu	37	1	111490704	111490704	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:111490704G>A	uc001eaa.2	-	4	2443	c.2187C>T	c.(2185-2187)TTC>TTT	p.F729F	C1orf103_uc001dzz.2_Silent_p.F193F|C1orf103_uc001eab.2_Silent_p.F193F|C1orf103_uc001eac.1_Silent_p.F192F	NM_018372	NP_060842	Q5T3J3	LRIF1_HUMAN	receptor-interacting factor 1 isoform 1	729					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)		GTGTCACTGGGAAAATATCTT	0.368													18	62	---	---	---	---	PASS
CHIA	27159	broad.mit.edu	37	1	111860303	111860303	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:111860303G>A	uc001eas.2	+	7	584	c.481G>A	c.(481-483)GAA>AAA	p.E161K	CHIA_uc001ear.2_Missense_Mutation_p.E53K|CHIA_uc001eaq.2_Missense_Mutation_p.E53K|CHIA_uc009wgc.2_Missense_Mutation_p.E53K|CHIA_uc001eat.2_5'UTR|CHIA_uc001eav.2_5'UTR|CHIA_uc001eau.2_5'UTR|CHIA_uc009wgd.2_5'UTR	NM_201653	NP_970615	Q9BZP6	CHIA_HUMAN	acidic chitinase isoform c	161					apoptosis|cell wall chitin metabolic process|chitin catabolic process|digestion|immune response|positive regulation of chemokine secretion|production of molecular mediator involved in inflammatory response|response to acid|response to fungus	cytoplasm|extracellular space	cation binding|chitin binding|chitinase activity|kinase binding|lysozyme activity|sugar binding			ovary(1)	1		all_cancers(81;3.23e-05)|all_epithelial(167;1.2e-05)|all_lung(203;0.000154)|Lung NSC(277;0.000304)		Colorectal(144;0.0115)|Lung(183;0.0292)|COAD - Colon adenocarcinoma(174;0.0314)|all cancers(265;0.0477)|Epithelial(280;0.0918)|LUSC - Lung squamous cell carcinoma(189;0.154)		TATTCTGTAGGAAATGCGTGA	0.358													10	45	---	---	---	---	PASS
MOV10	4343	broad.mit.edu	37	1	113238187	113238187	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:113238187G>A	uc001eck.2	+	11	2040	c.1770G>A	c.(1768-1770)GAG>GAA	p.E590E	MOV10_uc001ecl.2_Intron|MOV10_uc001ecn.2_Silent_p.E590E|MOV10_uc001ecm.2_Silent_p.E530E|MOV10_uc009wgj.1_Silent_p.E530E	NM_001130079	NP_001123551	Q9HCE1	MOV10_HUMAN	Mov10, Moloney leukemia virus 10, homolog	590					mRNA cleavage involved in gene silencing by miRNA|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body	ATP binding|helicase activity|protein binding|RNA binding			ovary(4)|skin(1)	5	Lung SC(450;0.246)	all_cancers(81;3.31e-11)|all_epithelial(167;5.69e-10)|all_lung(203;3.73e-05)|Breast(1374;0.000525)|Lung NSC(69;0.000954)|Ovarian(761;0.0367)|Lung SC(238;0.114)		OV - Ovarian serous cystadenocarcinoma(397;3.99e-67)|all cancers(265;1e-62)|Epithelial(280;4.78e-61)|Lung(183;0.0234)|Colorectal(144;0.0686)|READ - Rectum adenocarcinoma(129;0.0929)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)|BRCA - Breast invasive adenocarcinoma(282;0.24)		TGGTACCTGAGGACATCAAGG	0.542													12	17	---	---	---	---	PASS
MOV10	4343	broad.mit.edu	37	1	113238188	113238188	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:113238188G>A	uc001eck.2	+	11	2041	c.1771G>A	c.(1771-1773)GAC>AAC	p.D591N	MOV10_uc001ecl.2_Intron|MOV10_uc001ecn.2_Missense_Mutation_p.D591N|MOV10_uc001ecm.2_Missense_Mutation_p.D531N|MOV10_uc009wgj.1_Missense_Mutation_p.D531N	NM_001130079	NP_001123551	Q9HCE1	MOV10_HUMAN	Mov10, Moloney leukemia virus 10, homolog	591					mRNA cleavage involved in gene silencing by miRNA|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasmic mRNA processing body	ATP binding|helicase activity|protein binding|RNA binding			ovary(4)|skin(1)	5	Lung SC(450;0.246)	all_cancers(81;3.31e-11)|all_epithelial(167;5.69e-10)|all_lung(203;3.73e-05)|Breast(1374;0.000525)|Lung NSC(69;0.000954)|Ovarian(761;0.0367)|Lung SC(238;0.114)		OV - Ovarian serous cystadenocarcinoma(397;3.99e-67)|all cancers(265;1e-62)|Epithelial(280;4.78e-61)|Lung(183;0.0234)|Colorectal(144;0.0686)|READ - Rectum adenocarcinoma(129;0.0929)|COAD - Colon adenocarcinoma(174;0.111)|LUSC - Lung squamous cell carcinoma(189;0.133)|BRCA - Breast invasive adenocarcinoma(282;0.24)		GGTACCTGAGGACATCAAGGT	0.542													12	17	---	---	---	---	PASS
DCLRE1B	64858	broad.mit.edu	37	1	114454061	114454061	+	Missense_Mutation	SNP	C	T	T	rs145569979	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:114454061C>T	uc001eeg.2	+	4	1018	c.847C>T	c.(847-849)CGT>TGT	p.R283C	DCLRE1B_uc001eeh.2_Missense_Mutation_p.R157C|DCLRE1B_uc001eei.2_Missense_Mutation_p.R157C	NM_022836	NP_073747	Q9H816	DCR1B_HUMAN	DNA cross-link repair 1B (PSO2 homolog, S.	283					cell cycle checkpoint|DNA repair|protection from non-homologous end joining at telomere|telomeric 3' overhang formation|telomeric loop formation	centrosome|chromosome, telomeric region|nucleus	5'-3' exonuclease activity|protein binding				0	Lung SC(450;0.184)	all_cancers(81;1.46e-05)|all_epithelial(167;2.42e-05)|all_lung(203;0.000353)|Lung NSC(69;0.000518)		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)		CTCCGAGCTTCGTGCCTTTGT	0.562								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					16	50	---	---	---	---	PASS
HIPK1	204851	broad.mit.edu	37	1	114515898	114515898	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:114515898T>A	uc001eem.2	+	16	3558	c.3397T>A	c.(3397-3399)TTC>ATC	p.F1133I	HIPK1_uc001een.2_Missense_Mutation_p.F1133I|HIPK1_uc001eeo.2_Missense_Mutation_p.F759I|HIPK1_uc001eep.2_Missense_Mutation_p.F739I|HIPK1_uc001eeq.2_Missense_Mutation_p.F425I	NM_198268	NP_938009	Q86Z02	HIPK1_HUMAN	homeodomain-interacting protein kinase 1 isoform	1133					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)		TGCTCATCTTTTCTCCCCACA	0.597													46	72	---	---	---	---	PASS
DENND2C	163259	broad.mit.edu	37	1	115137115	115137115	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:115137115G>A	uc001efd.1	-	18	3112	c.2410C>T	c.(2410-2412)CAG>TAG	p.Q804*	DENND2C_uc001eez.2_RNA|DENND2C_uc001efc.1_Nonsense_Mutation_p.Q747*	NM_198459	NP_940861	Q68D51	DEN2C_HUMAN	DENN/MADD domain containing 2C	804										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)		TTCTGCTCCTGAGTCAAGATT	0.373													17	48	---	---	---	---	PASS
VANGL1	81839	broad.mit.edu	37	1	116226557	116226557	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:116226557C>T	uc001efv.1	+						VANGL1_uc009wgy.1_Intron	NM_138959	NP_620409	Q8TAA9	VANG1_HUMAN	vang-like 1						multicellular organismal development	integral to membrane	protein binding			central_nervous_system(1)	1	Lung SC(450;0.211)	all_cancers(81;1.24e-06)|all_epithelial(167;1.02e-06)|all_lung(203;7.95e-06)|Lung NSC(69;4.97e-05)		Lung(183;0.0171)|Colorectal(144;0.0686)|LUSC - Lung squamous cell carcinoma(189;0.0903)|all cancers(265;0.108)|COAD - Colon adenocarcinoma(174;0.111)|Epithelial(280;0.12)		ACTGTCCTTTCCCCAAAGGCC	0.517													19	37	---	---	---	---	PASS
VANGL1	81839	broad.mit.edu	37	1	116226635	116226635	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:116226635C>T	uc001efv.1	+	6	1288	c.1017C>T	c.(1015-1017)AGC>AGT	p.S339S	VANGL1_uc009wgy.1_Silent_p.S337S	NM_138959	NP_620409	Q8TAA9	VANG1_HUMAN	vang-like 1	339	Cytoplasmic (Potential).				multicellular organismal development	integral to membrane	protein binding			central_nervous_system(1)	1	Lung SC(450;0.211)	all_cancers(81;1.24e-06)|all_epithelial(167;1.02e-06)|all_lung(203;7.95e-06)|Lung NSC(69;4.97e-05)		Lung(183;0.0171)|Colorectal(144;0.0686)|LUSC - Lung squamous cell carcinoma(189;0.0903)|all cancers(265;0.108)|COAD - Colon adenocarcinoma(174;0.111)|Epithelial(280;0.12)		GGGACTCAAGCCACAACGAGT	0.537													16	22	---	---	---	---	PASS
TRIM45	80263	broad.mit.edu	37	1	117663382	117663382	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:117663382G>T	uc001egz.2	-	1	1030	c.442C>A	c.(442-444)CAG>AAG	p.Q148K	TRIM45_uc009whe.2_Missense_Mutation_p.Q148K|TRIM45_uc001eha.2_Missense_Mutation_p.Q44K	NM_025188	NP_079464	Q9H8W5	TRI45_HUMAN	tripartite motif-containing 45 isoform 1	148	B box-type 1.					cytoplasm|nucleus	zinc ion binding			central_nervous_system(1)	1	Lung SC(450;0.225)	all_cancers(81;0.000979)|all_lung(203;7.65e-05)|all_epithelial(167;0.000134)|Lung NSC(69;0.000389)		Lung(183;0.0537)|Colorectal(144;0.172)|LUSC - Lung squamous cell carcinoma(189;0.187)		TTGCAGGTCTGACACCTCTTC	0.547													8	31	---	---	---	---	PASS
WDR3	10885	broad.mit.edu	37	1	118483498	118483498	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:118483498C>T	uc010oxe.1	+	7	790	c.724C>T	c.(724-726)CCT>TCT	p.P242S	WDR3_uc001ehi.2_Intron|WDR3_uc001ehh.2_Missense_Mutation_p.P71S	NM_006784	NP_006775	Q9UNX4	WDR3_HUMAN	WD repeat-containing protein 3	242						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)		AGGATCTTCTCCTGGAATACA	0.388													52	113	---	---	---	---	PASS
WDR3	10885	broad.mit.edu	37	1	118483499	118483499	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:118483499C>T	uc010oxe.1	+	7	791	c.725C>T	c.(724-726)CCT>CTT	p.P242L	WDR3_uc001ehi.2_Intron|WDR3_uc001ehh.2_Missense_Mutation_p.P71L	NM_006784	NP_006775	Q9UNX4	WDR3_HUMAN	WD repeat-containing protein 3	242						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)		GGATCTTCTCCTGGAATACAA	0.388													50	114	---	---	---	---	PASS
SPAG17	200162	broad.mit.edu	37	1	118514682	118514682	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:118514682G>A	uc001ehk.2	-							NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17							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)		TTTGCATTAAGAAAAAATTAA	0.368													5	8	---	---	---	---	PASS
SPAG17	200162	broad.mit.edu	37	1	118538995	118538995	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:118538995G>A	uc001ehk.2	-	34	5119	c.5051C>T	c.(5050-5052)CCA>CTA	p.P1684L		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1684						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)		TCCTCTACCTGGCTGTTCCTG	0.428													26	74	---	---	---	---	PASS
SPAG17	200162	broad.mit.edu	37	1	118548057	118548057	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:118548057G>A	uc001ehk.2	-	32	4824	c.4756C>T	c.(4756-4758)CCT>TCT	p.P1586S		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1586						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)		TTTCCCTCAGGATCCAGAACC	0.438													32	57	---	---	---	---	PASS
SPAG17	200162	broad.mit.edu	37	1	118574470	118574470	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:118574470C>T	uc001ehk.2	-	25	3522	c.3454G>A	c.(3454-3456)GAA>AAA	p.E1152K		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1152						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)		AATATTGTTTCTAAATCAGGA	0.328													9	44	---	---	---	---	PASS
SPAG17	200162	broad.mit.edu	37	1	118581951	118581951	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:118581951C>T	uc001ehk.2	-	23	3351	c.3283G>A	c.(3283-3285)GAA>AAA	p.E1095K		NM_206996	NP_996879	Q6Q759	SPG17_HUMAN	sperm associated antigen 17	1095						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)		CCTTCTTCTTCCTCTTCTAAA	0.388													15	27	---	---	---	---	PASS
HSD3B1	3283	broad.mit.edu	37	1	120056657	120056657	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:120056657G>A	uc001ehv.1	+	4	656	c.511G>A	c.(511-513)GGG>AGG	p.G171R	HSD3B1_uc001ehw.2_Missense_Mutation_p.G173R	NM_000862	NP_000853	P14060	3BHS1_HUMAN	3 beta-hydroxysteroid dehydrogenase 1	171					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)	GGCGGCTAACGGGTGGAATCT	0.507													36	42	---	---	---	---	PASS
ADAM30	11085	broad.mit.edu	37	1	120437686	120437686	+	Missense_Mutation	SNP	C	T	T	rs145317971		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:120437686C>T	uc001eij.2	-	1	1428	c.1274G>A	c.(1273-1275)CGG>CAG	p.R425Q		NM_021794	NP_068566	Q9UKF2	ADA30_HUMAN	ADAM metallopeptidase domain 30 preproprotein	425	Disintegrin.|Extracellular (Potential).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			ovary(2)|lung(1)	3	all_cancers(5;7.07e-10)|all_epithelial(5;1.62e-10)|all_neural(166;0.153)|Breast(55;0.234)	all_lung(203;1.55e-06)|Lung NSC(69;1.04e-05)|all_epithelial(167;0.00138)		Lung(183;0.0204)|LUSC - Lung squamous cell carcinoma(189;0.117)		TTGGCAACACCGATCTTTCTG	0.453													19	86	---	---	---	---	PASS
NOTCH2	4853	broad.mit.edu	37	1	120510184	120510184	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:120510184C>G	uc001eik.2	-	8	1581	c.1325G>C	c.(1324-1326)TGT>TCT	p.C442S	NOTCH2_uc001eil.2_Missense_Mutation_p.C442S|NOTCH2_uc001eim.3_Missense_Mutation_p.C359S	NM_024408	NP_077719	Q04721	NOTC2_HUMAN	notch 2 preproprotein	442	Extracellular (Potential).|EGF-like 11; 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)		CAGACACTCACAGTGGAAGGC	0.473			N|F|Mis		marginal zone lymphoma|DLBCL				Alagille_Syndrome				19	55	---	---	---	---	PASS
PDE4DIP	9659	broad.mit.edu	37	1	144952248	144952248	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:144952248G>A	uc001elw.3	-	4	762	c.471C>T	c.(469-471)GAC>GAT	p.D157D	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.D223D|PDE4DIP_uc001emc.1_Silent_p.D157D|PDE4DIP_uc001emd.1_Silent_p.D157D|PDE4DIP_uc001emg.1_Silent_p.D157D|PDE4DIP_uc001emh.2_Silent_p.D294D	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	phosphodiesterase 4D interacting protein isoform	157					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)		GCTTGACCTGGTCTCCTGGTA	0.547			T	PDGFRB	MPD								4	63	---	---	---	---	PASS
PDE4DIP	9659	broad.mit.edu	37	1	144994956	144994956	+	5'UTR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:144994956C>T	uc001elw.3	-	1					NBPF10_uc009wir.2_Intron|NBPF9_uc010oye.1_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elk.1_5'UTR|PDE4DIP_uc001ell.1_Silent_p.E13E|PDE4DIP_uc001elm.3_Intron|PDE4DIP_uc001eln.3_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001elx.3_Intron|PDE4DIP_uc001emc.1_5'UTR|PDE4DIP_uc001emd.1_5'UTR|PDE4DIP_uc001emg.1_5'UTR|PDE4DIP_uc001emh.2_Intron	NM_014644	NP_055459	Q5VU43	MYOME_HUMAN	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)		CCTTTTTTACCTCAGGGAGAT	0.577			T	PDGFRB	MPD								7	75	---	---	---	---	PASS
HFE2	148738	broad.mit.edu	37	1	145416841	145416841	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145416841C>T	uc001eni.2	+	4	1511	c.1186C>T	c.(1186-1188)CTC>TTC	p.L396F	NBPF10_uc001emp.3_Intron|HFE2_uc001enj.2_Missense_Mutation_p.L170F|HFE2_uc001enk.2_Missense_Mutation_p.L283F|HFE2_uc001enl.2_Missense_Mutation_p.L170F	NM_213653	NP_998818	Q6ZVN8	RGMC_HUMAN	hemojuvelin isoform a precursor	396					axon guidance	anchored to membrane				ovary(1)	1	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					GAAGCTGCATCTCTTCCCCTC	0.517													16	24	---	---	---	---	PASS
PIAS3	10401	broad.mit.edu	37	1	145579331	145579331	+	Missense_Mutation	SNP	C	T	T	rs140039049		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145579331C>T	uc001eoc.1	+	5	759	c.668C>T	c.(667-669)CCG>CTG	p.P223L	NBPF10_uc001emp.3_Intron|PIAS3_uc010oyy.1_Missense_Mutation_p.P214L|PIAS3_uc001eod.1_5'Flank	NM_006099	NP_006090	Q9Y6X2	PIAS3_HUMAN	protein inhibitor of activated STAT, 3	223	PINIT.				positive regulation of protein sumoylation|protein sumoylation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nuclear speck	enzyme binding|nucleic acid binding|protein C-terminus binding|zinc ion binding			ovary(1)	1	all_hematologic(18;0.0187)|Acute lymphoblastic leukemia(18;0.0786)					TGCCCCCTGCCGGTAAATGCT	0.428													18	65	---	---	---	---	PASS
FMO5	2330	broad.mit.edu	37	1	146658808	146658808	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:146658808G>T	uc001epi.2	-	9	1662	c.1273C>A	c.(1273-1275)CGC>AGC	p.R425S	FMO5_uc001eph.3_Intron|FMO5_uc001epj.2_3'UTR	NM_001461	NP_001452	P49326	FMO5_HUMAN	flavin containing monooxygenase 5 isoform 1	425						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)					ATGGTATGGCGTTGGCTCTCC	0.378													7	23	---	---	---	---	PASS
CHD1L	9557	broad.mit.edu	37	1	146757105	146757105	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:146757105G>A	uc001epm.3	+	17	2022	c.1959G>A	c.(1957-1959)AAG>AAA	p.K653K	uc001epp.2_Intron|CHD1L_uc001epn.3_Silent_p.K540K|CHD1L_uc010ozo.1_RNA|CHD1L_uc009wjg.2_RNA|CHD1L_uc009wjh.2_Silent_p.K559K|CHD1L_uc010ozp.1_Silent_p.K372K|CHD1L_uc001epo.3_Silent_p.K449K|CHD1L_uc010ozq.1_Silent_p.K226K|CHD1L_uc009wji.2_Silent_p.K372K	NM_004284	NP_004275	Q86WJ1	CHD1L_HUMAN	chromodomain helicase DNA binding protein	653	Potential.				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)					CAGCTGCCAAGAGAAGGAGAC	0.493													37	132	---	---	---	---	PASS
GJA8	2703	broad.mit.edu	37	1	147380281	147380281	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:147380281G>A	uc001epu.1	+	2	262	c.199G>A	c.(199-201)GAC>AAC	p.D67N		NM_005267	NP_005258	P48165	CXA8_HUMAN	connexin 50	67	Extracellular (Potential).				cell communication|visual perception	connexon complex|integral to plasma membrane	channel activity			ovary(2)|large_intestine(2)|breast(1)|skin(1)	6	all_hematologic(923;0.0276)					CGTCTGCTACGACGAGGCCTT	0.612													29	43	---	---	---	---	PASS
SV2A	9900	broad.mit.edu	37	1	149884930	149884930	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:149884930T>G	uc001etg.2	-	2	954	c.463A>C	c.(463-465)ATC>CTC	p.I155L	SV2A_uc001eth.2_Missense_Mutation_p.I155L	NM_014849	NP_055664	Q7L0J3	SV2A_HUMAN	synaptic vesicle glycoprotein 2	155	Cytoplasmic (Potential).				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)	TCCCGTAGGATGGCTTCATAC	0.607													16	19	---	---	---	---	PASS
MTMR11	10903	broad.mit.edu	37	1	149902774	149902774	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:149902774G>A	uc001etl.3	-	14	1625	c.1374C>T	c.(1372-1374)TTC>TTT	p.F458F	SF3B4_uc001etk.1_5'Flank|SF3B4_uc009wll.1_5'Flank|MTMR11_uc001etm.1_Silent_p.F386F|MTMR11_uc010pbm.1_3'UTR|MTMR11_uc010pbn.1_3'UTR	NM_001145862	NP_001139334	A4FU01	MTMRB_HUMAN	myotubularin related protein 11 isoform a	458	Myotubularin phosphatase.						phosphatase activity			central_nervous_system(1)	1	Breast(34;0.0009)|Ovarian(49;0.0377)|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)			GAGCAAGAAGGAAAAACTCAG	0.493													16	15	---	---	---	---	PASS
ARNT	405	broad.mit.edu	37	1	150784532	150784532	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:150784532G>A	uc001evr.1	-	22	2478	c.2335C>T	c.(2335-2337)CCT>TCT	p.P779S	ARNT_uc010pck.1_Missense_Mutation_p.P267S|ARNT_uc001evs.1_Missense_Mutation_p.P764S|ARNT_uc009wmb.1_Missense_Mutation_p.P765S|ARNT_uc009wmc.1_Missense_Mutation_p.P777S|ARNT_uc009wmd.1_Missense_Mutation_p.P763S	NM_001668	NP_001659	P27540	ARNT_HUMAN	aryl hydrocarbon receptor nuclear translocator	779					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)			GTTAGATCAGGGAATTCTTCA	0.403			T	ETV6	AML								13	35	---	---	---	---	PASS
ARNT	405	broad.mit.edu	37	1	150790443	150790443	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:150790443G>A	uc001evr.1	-	15	1601	c.1458C>T	c.(1456-1458)CCC>CCT	p.P486P	ARNT_uc010pck.1_5'Flank|ARNT_uc001evs.1_Silent_p.P471P|ARNT_uc009wmb.1_Silent_p.P472P|ARNT_uc009wmc.1_Silent_p.P486P|ARNT_uc009wmd.1_Silent_p.P471P|ARNT_uc009wme.1_3'UTR	NM_001668	NP_001659	P27540	ARNT_HUMAN	aryl hydrocarbon receptor nuclear translocator	486					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)			AATTAGCTGTGGGACCTAGTT	0.522			T	ETV6	AML								6	13	---	---	---	---	PASS
ANXA9	8416	broad.mit.edu	37	1	150958867	150958867	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:150958867G>A	uc001ewa.2	+	8	998	c.528G>A	c.(526-528)CAG>CAA	p.Q176Q		NM_003568	NP_003559	O76027	ANXA9_HUMAN	annexin A9	176	Annexin 2.				cell-cell adhesion	cell surface|cytosol	acetylcholine receptor activity|calcium ion binding|calcium-dependent phospholipid binding|phosphatidylserine binding|protein homodimerization activity				0	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)			GCATCTTGCAGGACCTGCTGT	0.572													18	13	---	---	---	---	PASS
FAM63A	55793	broad.mit.edu	37	1	150971880	150971880	+	Nonsense_Mutation	SNP	G	A	A	rs150431391		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:150971880G>A	uc001ewf.2	-	8	2630	c.946C>T	c.(946-948)CGA>TGA	p.R316*	FAM63A_uc001ewc.2_Nonsense_Mutation_p.R174*|FAM63A_uc010pcm.1_Nonsense_Mutation_p.R221*|FAM63A_uc001ewd.2_Nonsense_Mutation_p.R174*|FAM63A_uc001ewe.2_Nonsense_Mutation_p.R150*|FAM63A_uc010pcn.1_Nonsense_Mutation_p.R364*|FAM63A_uc001ewg.2_Nonsense_Mutation_p.R316*	NM_018379	NP_001156731	Q8N5J2	FA63A_HUMAN	hypothetical protein LOC55793 isoform 1	316							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)			TGGTTGTTTCGGAAAAAGACG	0.547													53	101	---	---	---	---	PASS
FAM63A	55793	broad.mit.edu	37	1	150971965	150971965	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:150971965C>T	uc001ewf.2	-	8	2545	c.861G>A	c.(859-861)CTG>CTA	p.L287L	FAM63A_uc001ewc.2_Silent_p.L145L|FAM63A_uc010pcm.1_Silent_p.L192L|FAM63A_uc001ewd.2_Silent_p.L145L|FAM63A_uc001ewe.2_Silent_p.L121L|FAM63A_uc010pcn.1_Silent_p.L335L|FAM63A_uc001ewg.2_Silent_p.L287L	NM_018379	NP_001156731	Q8N5J2	FA63A_HUMAN	hypothetical protein LOC55793 isoform 1	287				L -> P (in Ref. 2; BAA92104).			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)			CGGTGGTCTCCAGGAACTGCT	0.552													47	62	---	---	---	---	PASS
FAM63A	55793	broad.mit.edu	37	1	150971968	150971968	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:150971968G>A	uc001ewf.2	-	8	2542	c.858C>T	c.(856-858)TTC>TTT	p.F286F	FAM63A_uc001ewc.2_Silent_p.F144F|FAM63A_uc010pcm.1_Silent_p.F191F|FAM63A_uc001ewd.2_Silent_p.F144F|FAM63A_uc001ewe.2_Silent_p.F120F|FAM63A_uc010pcn.1_Silent_p.F334F|FAM63A_uc001ewg.2_Silent_p.F286F	NM_018379	NP_001156731	Q8N5J2	FA63A_HUMAN	hypothetical protein LOC55793 isoform 1	286							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)			TGGTCTCCAGGAACTGCTCTG	0.557													19	89	---	---	---	---	PASS
BNIPL	149428	broad.mit.edu	37	1	151015542	151015542	+	Nonsense_Mutation	SNP	C	T	T	rs141131792		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:151015542C>T	uc001ewl.2	+	5	717	c.544C>T	c.(544-546)CGA>TGA	p.R182*	BNIPL_uc009wmi.2_Nonsense_Mutation_p.R100*|BNIPL_uc009wmj.2_RNA	NM_138278	NP_612122	Q7Z465	BNIPL_HUMAN	BCL2/adenovirus E1B 19kD interacting protein	182					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)			GAGGGTGTTCCGAATGGGACC	0.542													12	33	---	---	---	---	PASS
SCNM1	79005	broad.mit.edu	37	1	151141495	151141495	+	Missense_Mutation	SNP	G	T	T	rs139584849	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:151141495G>T	uc001ewz.2	+	7	739	c.627G>T	c.(625-627)TGG>TGT	p.W209C	SCNM1_uc009wmn.2_RNA	NM_024041	NP_076946	Q9BWG6	SCNM1_HUMAN	sodium channel modifier 1	209					mRNA processing|RNA splicing	nucleus	metal ion binding|protein binding			upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)|skin(1)	4	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)			GAGGTCGATGGGTAAAAGATG	0.393													5	78	---	---	---	---	PASS
PIP5K1A	8394	broad.mit.edu	37	1	151209235	151209235	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:151209235G>A	uc001exj.2	+	9	1593	c.1141G>A	c.(1141-1143)GAC>AAC	p.D381N	PIP5K1A_uc001exi.2_Missense_Mutation_p.D368N|PIP5K1A_uc010pcu.1_Missense_Mutation_p.D369N|PIP5K1A_uc001exk.2_Missense_Mutation_p.D368N|PIP5K1A_uc010pcv.1_Missense_Mutation_p.D138N	NM_001135638	NP_001129110	Q99755	PI51A_HUMAN	phosphatidylinositol-4-phosphate 5-kinase, type	381	PIPK.				phospholipid biosynthetic process|signal transduction	endomembrane system|Golgi stack|lamellipodium|nuclear speck	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|kinase binding			ovary(1)|central_nervous_system(1)|skin(1)	3	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;0.181)			GGAGACTGATGACCAGTAAGT	0.443													5	15	---	---	---	---	PASS
PI4KB	5298	broad.mit.edu	37	1	151278830	151278830	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:151278830G>A	uc001ext.2	-	5	1607	c.1192C>T	c.(1192-1194)CTG>TTG	p.L398L	PI4KB_uc001exr.2_Silent_p.L410L|PI4KB_uc001exs.2_Silent_p.L383L|PI4KB_uc001exu.2_Silent_p.L383L|PI4KB_uc010pcw.1_Silent_p.L66L	NM_002651	NP_002642	Q9UBF8	PI4KB_HUMAN	catalytic phosphatidylinositol 4-kinase beta	398					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)			ACATAAATCAGGTAGGGAGCC	0.493													5	21	---	---	---	---	PASS
CGN	57530	broad.mit.edu	37	1	151502589	151502589	+	Missense_Mutation	SNP	G	A	A	rs41272459	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:151502589G>A	uc009wmw.2	+	12	2455	c.2311G>A	c.(2311-2313)GAG>AAG	p.E771K		NM_020770	NP_065821	Q9P2M7	CING_HUMAN	cingulin	765	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)			GCAGCGGCTGGAGGTCAGTGG	0.582													8	22	---	---	---	---	PASS
TUFT1	7286	broad.mit.edu	37	1	151553518	151553518	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:151553518G>T	uc001eyl.2	+	12	1171	c.1109G>T	c.(1108-1110)AGT>ATT	p.S370I	TUFT1_uc001eym.2_Missense_Mutation_p.S345I|TUFT1_uc010pdf.1_Missense_Mutation_p.S389I|TUFT1_uc010pdg.1_Missense_Mutation_p.S318I	NM_020127	NP_064512	Q9NNX1	TUFT1_HUMAN	tuftelin 1 isoform 1	370					bone mineralization|odontogenesis	cytoplasm|extracellular region	structural constituent of tooth enamel				0	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)			AACCCGGGCAGGTGAGTGAGC	0.527													4	31	---	---	---	---	PASS
CELF3	11189	broad.mit.edu	37	1	151677575	151677575	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:151677575C>T	uc001eys.1	-	12	2134	c.1340G>A	c.(1339-1341)GGC>GAC	p.G447D	CELF3_uc010pdh.1_Missense_Mutation_p.G233D|CELF3_uc001eyr.2_Missense_Mutation_p.G446D|CELF3_uc009wmy.2_Missense_Mutation_p.G397D|CELF3_uc009wmx.1_Missense_Mutation_p.G446D	NM_007185	NP_009116	Q5SZQ8	CELF3_HUMAN	trinucleotide repeat containing 4	447	RRM 3.				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						GCGCTTCATGCCGATCTGGAA	0.642													11	20	---	---	---	---	PASS
THEM5	284486	broad.mit.edu	37	1	151820774	151820774	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:151820774G>A	uc009wnd.2	-							NM_182578	NP_872384	Q8N1Q8	THEM5_HUMAN	thioesterase superfamily member 5								hydrolase activity			ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|all_hematologic(923;0.127)|Melanoma(130;0.14)		LUSC - Lung squamous cell carcinoma(543;0.181)			CAAACCTGGGGGTGGGGTAAG	0.607													7	20	---	---	---	---	PASS
TCHHL1	126637	broad.mit.edu	37	1	152058447	152058447	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:152058447C>T	uc001ezo.1	-	3	1776	c.1711G>A	c.(1711-1713)GGG>AGG	p.G571R		NM_001008536	NP_001008536	Q5QJ38	TCHL1_HUMAN	trichohyalin-like 1	571							calcium ion binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.246)			TGGGAGTCCCCTTGCACAGGC	0.522													22	59	---	---	---	---	PASS
TCHHL1	126637	broad.mit.edu	37	1	152058776	152058776	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:152058776C>T	uc001ezo.1	-	3	1447	c.1382G>A	c.(1381-1383)GGA>GAA	p.G461E		NM_001008536	NP_001008536	Q5QJ38	TCHL1_HUMAN	trichohyalin-like 1	461							calcium ion binding			ovary(1)|skin(1)	2	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.246)			GACTGCTGTTCCTTCAAGTTC	0.458													21	73	---	---	---	---	PASS
HRNR	388697	broad.mit.edu	37	1	152188180	152188180	+	Silent	SNP	G	A	A	rs148177357		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:152188180G>A	uc001ezt.1	-	3	6001	c.5925C>T	c.(5923-5925)TCC>TCT	p.S1975S		NM_001009931	NP_001009931	Q86YZ3	HORN_HUMAN	hornerin	1975	22.				keratinization		calcium ion binding|protein binding			skin(2)|ovary(1)	3	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			GGCCACGGCTGGAAGACCACC	0.597													20	498	---	---	---	---	PASS
FLG	2312	broad.mit.edu	37	1	152276621	152276621	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:152276621G>A	uc001ezu.1	-	3	10777	c.10741C>T	c.(10741-10743)CAT>TAT	p.H3581Y		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	3581	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			TCTTCGTGATGGGACGTGGGG	0.557									Ichthyosis				52	162	---	---	---	---	PASS
FLG	2312	broad.mit.edu	37	1	152278894	152278894	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:152278894C>T	uc001ezu.1	-	3	8504	c.8468G>A	c.(8467-8469)GGA>GAA	p.G2823E		NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	2823	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ATCAGACCTTCCCTGGGATGT	0.587									Ichthyosis				63	101	---	---	---	---	PASS
FLG	2312	broad.mit.edu	37	1	152283957	152283957	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:152283957C>T	uc001ezu.1	-	3	3441	c.3405G>A	c.(3403-3405)AGG>AGA	p.R1135R	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1135	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			CAGTGCTGGTCCTGGTCCGCC	0.602									Ichthyosis				91	118	---	---	---	---	PASS
FLG	2312	broad.mit.edu	37	1	152285383	152285383	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:152285383G>T	uc001ezu.1	-	3	2015	c.1979C>A	c.(1978-1980)CCC>CAC	p.P660H	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	660	Ser-rich.				keratinocyte differentiation	cytoplasmic membrane-bounded vesicle|intermediate filament	calcium ion binding|structural molecule activity			ovary(9)|skin(4)|upper_aerodigestive_tract(3)	16	Hepatocellular(266;0.0877)|Melanoma(130;0.116)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.206)			ATGGGACCTGGGGTGTCTGGA	0.542									Ichthyosis				7	218	---	---	---	---	PASS
FLG2	388698	broad.mit.edu	37	1	152325569	152325569	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:152325569C>T	uc001ezw.3	-	3	4766	c.4693G>A	c.(4693-4695)GGG>AGG	p.G1565R	uc001ezv.2_Intron	NM_001014342	NP_001014364	Q5D862	FILA2_HUMAN	filaggrin family member 2	1565							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)			GTCCTGGACCCTGTCTGTGTG	0.488													46	97	---	---	---	---	PASS
S100A7A	338324	broad.mit.edu	37	1	153390678	153390678	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:153390678C>T	uc001fbt.1	+	2	177	c.120C>T	c.(118-120)TTC>TTT	p.F40F		NM_176823	NP_789793	Q86SG5	S1A7A_HUMAN	S100 calcium binding protein A7-like 1	40	EF-hand 1.					cytoplasm	calcium ion binding			skin(1)	1	all_lung(78;2.81e-33)|Lung NSC(65;9.54e-32)|Hepatocellular(266;0.0877)|all_hematologic(923;0.127)		LUSC - Lung squamous cell carcinoma(543;0.171)			AGGAGAACTTCCCCAATTTCC	0.438													19	52	---	---	---	---	PASS
NPR1	4881	broad.mit.edu	37	1	153659802	153659802	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:153659802G>A	uc001fcs.3	+	13	2483	c.2062G>A	c.(2062-2064)GAC>AAC	p.D688N	NPR1_uc010pdz.1_Missense_Mutation_p.D434N|NPR1_uc010pea.1_Missense_Mutation_p.D166N	NM_000906	NP_000897	P16066	ANPRA_HUMAN	natriuretic peptide receptor 1 precursor	688	Cytoplasmic (Potential).|Protein kinase.				body fluid secretion|intracellular signal transduction|negative regulation of angiogenesis|negative regulation of cell growth|positive regulation of renal sodium excretion|positive regulation of urine volume|receptor guanylyl cyclase signaling pathway|regulation of blood pressure|regulation of blood vessel size|regulation of vascular permeability|regulation of vasodilation		ATP binding|GTP binding|guanylate cyclase activity|natriuretic peptide receptor activity|peptide receptor activity, G-protein coupled|protein kinase activity			ovary(3)|lung(2)|stomach(1)|breast(1)	7	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)		Erythrityl Tetranitrate(DB01613)|Isosorbide Dinitrate(DB00883)|Isosorbide Mononitrate(DB01020)|Nesiritide(DB04899)|Nitric Oxide(DB00435)|Nitroglycerin(DB00727)|Nitroprusside(DB00325)	CAGGGACCTGGACCCAGAGCA	0.557													19	19	---	---	---	---	PASS
SLC39A1	27173	broad.mit.edu	37	1	153933221	153933221	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:153933221G>A	uc001fdh.2	-	4	497	c.328C>T	c.(328-330)CCA>TCA	p.P110S	CRTC2_uc010ped.1_5'Flank|SLC39A1_uc001fdi.2_Missense_Mutation_p.P110S|SLC39A1_uc001fdj.2_Missense_Mutation_p.P110S|SLC39A1_uc001fdk.2_Missense_Mutation_p.P110S|SLC39A1_uc010pee.1_Missense_Mutation_p.P8S|SLC39A1_uc001fdl.2_Missense_Mutation_p.P110S	NM_014437	NP_055252	Q9NY26	S39A1_HUMAN	solute carrier family 39 (zinc transporter),	110	Helical; (Potential).					endoplasmic reticulum membrane|integral to membrane|membrane fraction|plasma membrane	zinc ion transmembrane transporter activity				0	all_lung(78;3.05e-32)|Lung NSC(65;3.74e-30)|Hepatocellular(266;0.0877)|Melanoma(130;0.199)		LUSC - Lung squamous cell carcinoma(543;0.151)	Colorectal(1306;0.019)		TCTTGCAGTGGGAACTGGAGC	0.537													13	13	---	---	---	---	PASS
HAX1	10456	broad.mit.edu	37	1	154246318	154246318	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:154246318A>G	uc001fes.2	+	3	546	c.385A>G	c.(385-387)ATG>GTG	p.M129V	HAX1_uc001fet.2_Missense_Mutation_p.M81V|HAX1_uc010peo.1_Missense_Mutation_p.M137V|HAX1_uc009wou.2_Missense_Mutation_p.M54V|HAX1_uc009wov.2_Missense_Mutation_p.M103V	NM_006118	NP_006109	O00165	HAX1_HUMAN	HCLS1 associated protein X-1 isoform a	129	Involved in HCLS1 binding.					actin cytoskeleton|cytoplasmic membrane-bounded vesicle|lamellipodium|mitochondrion|nuclear membrane|sarcoplasmic reticulum|soluble fraction	interleukin-1 binding|protein N-terminus binding				0	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			TCGGGACTCAATGCTTAAGTA	0.552									Kostmann_syndrome				27	53	---	---	---	---	PASS
ATP8B2	57198	broad.mit.edu	37	1	154315615	154315615	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:154315615C>A	uc001fex.2	+	16	1579	c.1579C>A	c.(1579-1581)CCA>ACA	p.P527T		NM_020452	NP_065185	P98198	AT8B2_HUMAN	ATPase, class I, type 8B, member 2 isoform a	513	Cytoplasmic (Potential).				ATP biosynthetic process	plasma membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			ovary(1)|skin(1)	2	all_lung(78;2.62e-30)|Lung NSC(65;3.94e-28)|Hepatocellular(266;0.0877)		LUSC - Lung squamous cell carcinoma(543;0.185)			AGCTCAGTCCCCAGATGAGGG	0.582													4	23	---	---	---	---	PASS
LENEP	55891	broad.mit.edu	37	1	154966201	154966201	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:154966201C>T	uc001fgi.2	+	1	140	c.118C>T	c.(118-120)CAG>TAG	p.Q40*		NM_018655	NP_061125	Q9Y5L5	LENEP_HUMAN	lens epithelial protein	40					multicellular organismal development		DNA binding				0	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)			GGAGGGCTTCCAGCGGACCCT	0.607													9	21	---	---	---	---	PASS
ZBTB7B	51043	broad.mit.edu	37	1	154988918	154988918	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:154988918C>T	uc001fgk.3	+	4	1535	c.1377C>T	c.(1375-1377)ACC>ACT	p.T459T	ZBTB7B_uc009wpa.2_Silent_p.T459T|ZBTB7B_uc001fgj.3_Silent_p.T493T|ZBTB7B_uc010peq.1_Silent_p.T493T|ZBTB7B_uc001fgl.3_Silent_p.T459T	NM_015872	NP_056956	O15156	ZBT7B_HUMAN	zinc finger and BTB domain containing 7B	459					cell differentiation|ectoderm development|multicellular organismal development|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding				0	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)			AGGTGCGCACCCGACGGCGCC	0.667													10	11	---	---	---	---	PASS
ADAM15	8751	broad.mit.edu	37	1	155029676	155029676	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:155029676C>T	uc001fgr.1	+	12	1262	c.1161C>T	c.(1159-1161)GGC>GGT	p.G387G	ADAM15_uc001fgq.1_Silent_p.G72G|ADAM15_uc010pet.1_Silent_p.G371G|ADAM15_uc010peu.1_Silent_p.G404G|ADAM15_uc001fgt.1_Silent_p.G387G|ADAM15_uc010pev.1_Silent_p.G397G|ADAM15_uc001fgs.1_Silent_p.G387G|ADAM15_uc001fgu.1_Silent_p.G387G|ADAM15_uc001fgw.1_Silent_p.G387G|ADAM15_uc001fgv.1_Silent_p.G387G|ADAM15_uc001fgx.1_Silent_p.G387G|ADAM15_uc001fgz.1_RNA|ADAM15_uc001fgy.1_RNA|ADAM15_uc001fha.1_RNA|ADAM15_uc001fhb.1_5'Flank	NM_207197	NP_997080	Q13444	ADA15_HUMAN	a disintegrin and metalloproteinase domain 15	387	Peptidase M12B.|Extracellular (Potential).				angiogenesis|cell-matrix adhesion|collagen catabolic process|proteolysis	acrosomal vesicle|adherens junction|endomembrane system|flagellum|integral to membrane	metalloendopeptidase activity|SH3 domain binding|zinc ion binding			central_nervous_system(3)|skin(2)|ovary(1)	6	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)			TCCTACCAGGCCTGAACTTCA	0.642													9	18	---	---	---	---	PASS
THBS3	7059	broad.mit.edu	37	1	155168253	155168253	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:155168253G>A	uc001fix.2	-	17	2044	c.2021C>T	c.(2020-2022)CCT>CTT	p.P674L	RAG1AP1_uc010pey.1_Intron|THBS3_uc009wqi.2_Missense_Mutation_p.P665L|THBS3_uc001fiz.2_Missense_Mutation_p.P637L|THBS3_uc001fiy.2_Missense_Mutation_p.P203L|THBS3_uc010pfu.1_Missense_Mutation_p.P554L|THBS3_uc010pfv.1_RNA	NM_007112	NP_009043	P49746	TSP3_HUMAN	thrombospondin 3 precursor	674	TSP type-3 7.				cell-matrix adhesion	extracellular region|perinuclear region of cytoplasm	calcium ion binding|heparin binding|structural molecule activity			breast(3)|ovary(2)	5	all_epithelial(22;5.72e-28)|all_lung(78;2.07e-24)|all_hematologic(923;0.0359)|Hepatocellular(266;0.0877)		Epithelial(20;3.72e-10)|all cancers(21;1.19e-09)|BRCA - Breast invasive adenocarcinoma(34;0.000752)|LUSC - Lung squamous cell carcinoma(543;0.193)			ATCGGGACCAGGAGGCACATA	0.537													23	41	---	---	---	---	PASS
PKLR	5313	broad.mit.edu	37	1	155264555	155264555	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:155264555G>A	uc001fkb.3	-						RAG1AP1_uc010pey.1_Intron|PKLR_uc001fka.3_Intron	NM_000298	NP_000289	P30613	KPYR_HUMAN	pyruvate kinase, liver and RBC isoform 1						endocrine pancreas development|energy reserve metabolic process|glycolysis|positive regulation of cellular metabolic process	cytosol	ATP binding|magnesium ion binding|potassium ion binding|pyruvate kinase activity			skin(4)|ovary(1)	5	all_lung(78;6.99e-23)|Hepatocellular(266;0.0877)|all_hematologic(923;0.145)		Epithelial(20;3.18e-10)|all cancers(21;7.9e-10)|BRCA - Breast invasive adenocarcinoma(34;0.00116)|LUSC - Lung squamous cell carcinoma(543;0.127)		Pyruvic acid(DB00119)	TGCGGACATGGAAAGAGCCAG	0.652													4	8	---	---	---	---	PASS
ASH1L	55870	broad.mit.edu	37	1	155449538	155449538	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:155449538C>T	uc009wqq.2	-	3	3603	c.3123G>A	c.(3121-3123)AAG>AAA	p.K1041K	ASH1L_uc001fkt.2_Silent_p.K1041K|ASH1L_uc009wqr.1_Silent_p.K1041K	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	1041					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)			TGGTTCCTTTCTTGCTGACAT	0.398													24	30	---	---	---	---	PASS
ASH1L	55870	broad.mit.edu	37	1	155450362	155450362	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:155450362G>A	uc009wqq.2	-	3	2779	c.2299C>T	c.(2299-2301)CCT>TCT	p.P767S	ASH1L_uc001fkt.2_Missense_Mutation_p.P767S|ASH1L_uc009wqr.1_Missense_Mutation_p.P767S	NM_018489	NP_060959	Q9NR48	ASH1L_HUMAN	absent, small, or homeotic 1-like	767					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)			ACAAATGAAGGGGGTCCAATG	0.388													31	70	---	---	---	---	PASS
YY1AP1	55249	broad.mit.edu	37	1	155644852	155644852	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:155644852G>A	uc001fln.2	-	6	582	c.558C>T	c.(556-558)GCC>GCT	p.A186A	YY1AP1_uc010pgg.1_Intron|YY1AP1_uc010pgh.1_Silent_p.A109A|YY1AP1_uc010pgi.1_Silent_p.A258A|YY1AP1_uc001flh.2_Silent_p.A258A|YY1AP1_uc009wqt.2_Silent_p.A109A|YY1AP1_uc001flk.2_Silent_p.A109A|YY1AP1_uc001fll.2_Silent_p.A120A|YY1AP1_uc009wqv.2_5'UTR|YY1AP1_uc001flm.2_Silent_p.A109A|YY1AP1_uc001fli.2_Silent_p.A120A|YY1AP1_uc009wqu.2_5'UTR|YY1AP1_uc001flj.2_Silent_p.A120A|YY1AP1_uc009wqw.2_Silent_p.A109A|YY1AP1_uc001flo.2_Silent_p.A54A|YY1AP1_uc001flp.2_Silent_p.A120A|YY1AP1_uc010pgj.1_Silent_p.A186A|YY1AP1_uc009wqx.2_Silent_p.A258A|YY1AP1_uc010pgk.1_Silent_p.A258A	NM_139118	NP_620829	Q9H869	YYAP1_HUMAN	YY1-associated protein isoform 2	186					regulation of cell cycle|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding			ovary(2)|skin(1)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)					GGTTGCAGGTGGCAAGAAGGT	0.428													18	14	---	---	---	---	PASS
KIAA0907	22889	broad.mit.edu	37	1	155883947	155883947	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:155883947C>T	uc001fmi.1	-	14	1834	c.1810G>A	c.(1810-1812)GCT>ACT	p.A604T	RIT1_uc001fmh.1_5'Flank|RIT1_uc010pgr.1_5'Flank|KIAA0907_uc001fmj.1_3'UTR|KIAA0907_uc009wrk.1_Missense_Mutation_p.A461T	NM_014949	NP_055764	Q7Z7F0	K0907_HUMAN	hypothetical protein LOC22889	604											0	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)		OV - Ovarian serous cystadenocarcinoma(3;8.82e-06)			TGTTGTTTAGCTCGTGGTTGT	0.428													22	21	---	---	---	---	PASS
SSR2	6746	broad.mit.edu	37	1	155989841	155989841	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:155989841G>A	uc001fmx.2	-	2	198	c.118C>T	c.(118-120)CTG>TTG	p.L40L	SSR2_uc001fmw.2_RNA|SSR2_uc001fmy.2_RNA|SSR2_uc010pgv.1_Silent_p.L59L|SSR2_uc010pgw.1_Silent_p.L59L	NM_003145	NP_003136	P43308	SSRB_HUMAN	signal sequence receptor, beta precursor	40	Lumenal (Potential).				cotranslational protein targeting to membrane	endoplasmic reticulum membrane|integral to membrane	signal sequence binding				0	Hepatocellular(266;0.133)|all_hematologic(923;0.145)|all_neural(408;0.195)					TGCAAGGTCAGGTCTCGTCCC	0.478													8	32	---	---	---	---	PASS
UBQLN4	56893	broad.mit.edu	37	1	156011382	156011382	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:156011382G>A	uc001fna.2	-	10	1571	c.1547C>T	c.(1546-1548)TCC>TTC	p.S516F	UBQLN4_uc010pgx.1_Missense_Mutation_p.S496F	NM_020131	NP_064516	Q9NRR5	UBQL4_HUMAN	ataxin-1 ubiquitin-like interacting protein	516						cytosol|endoplasmic reticulum membrane|nucleus	identical protein binding			pancreas(1)|skin(1)	2	Hepatocellular(266;0.133)|all_neural(408;0.195)					GGCTGGTGAGGAAGTGGGGGC	0.607													7	19	---	---	---	---	PASS
IQGAP3	128239	broad.mit.edu	37	1	156526478	156526478	+	Silent	SNP	G	A	A	rs141039819		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:156526478G>A	uc001fpf.2	-	12	1212	c.1137C>T	c.(1135-1137)CAC>CAT	p.H379H	IQGAP3_uc009wsb.1_Silent_p.H336H	NM_178229	NP_839943	Q86VI3	IQGA3_HUMAN	IQ motif containing GTPase activating protein 3	379					small GTPase mediated signal transduction	intracellular	calmodulin binding|Ras GTPase activator activity			ovary(5)|skin(1)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					GCTGCACAGCGTGGAGCACTG	0.612													11	20	---	---	---	---	PASS
BCAN	63827	broad.mit.edu	37	1	156617450	156617450	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:156617450G>A	uc001fpp.2	+	4	953	c.617G>A	c.(616-618)GGC>GAC	p.G206D	BCAN_uc001fpo.2_Missense_Mutation_p.G206D	NM_021948	NP_068767	Q96GW7	PGCB_HUMAN	brevican isoform 1	206	Link 1.				cell adhesion	anchored to membrane|proteinaceous extracellular matrix	hyaluronic acid binding|sugar binding			ovary(1)|pancreas(1)	2	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TGTGATGCTGGCTGGCTGTCG	0.657													16	36	---	---	---	---	PASS
NES	10763	broad.mit.edu	37	1	156640228	156640228	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:156640228C>T	uc001fpq.2	-	4	3885	c.3752G>A	c.(3751-3753)GGG>GAG	p.G1251E		NM_006617	NP_006608	P48681	NEST_HUMAN	nestin	1251	Tail.				brain development|embryonic camera-type eye development|G2/M transition of mitotic cell cycle|negative regulation of apoptosis|positive regulation of intermediate filament depolymerization|positive regulation of neural precursor cell proliferation|stem cell proliferation	cytoplasm|intermediate filament	intermediate filament binding|structural molecule activity			ovary(6)	6	all_hematologic(923;0.088)|Hepatocellular(266;0.158)					TTCAGCCCTCCCCTGCACCCC	0.657													34	63	---	---	---	---	PASS
NTRK1	4914	broad.mit.edu	37	1	156834541	156834541	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:156834541C>T	uc001fqh.1	+	3	365	c.309C>T	c.(307-309)CTC>CTT	p.L103L	NTRK1_uc001fqf.1_Silent_p.L73L|NTRK1_uc009wsi.1_5'UTR|NTRK1_uc001fqi.1_Silent_p.L103L|NTRK1_uc009wsk.1_Silent_p.L103L	NM_002529	NP_002520	P04629	NTRK1_HUMAN	neurotrophic tyrosine kinase, receptor, type 1	103	LRR 1.|Extracellular (Potential).				activation of adenylate cyclase activity|activation of MAPKK activity|activation of phospholipase C activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development|phosphatidylinositol-mediated signaling|Ras protein signal transduction	endosome|integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein serine/threonine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(9)|ovary(6)|stomach(1)|central_nervous_system(1)	17	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)				Imatinib(DB00619)	AGAGTGGTCTCCGTTTCGTGG	0.642			T	TPM3|TPR|TFG	papillary thyroid					TSP Lung(10;0.080)			6	19	---	---	---	---	PASS
NTRK1	4914	broad.mit.edu	37	1	156846359	156846359	+	Silent	SNP	C	T	T	rs139606876		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:156846359C>T	uc001fqh.1	+	14	1856	c.1800C>T	c.(1798-1800)TTC>TTT	p.F600F	NTRK1_uc001fqf.1_Silent_p.F564F|NTRK1_uc009wsi.1_Silent_p.F299F|NTRK1_uc001fqi.1_Silent_p.F594F|NTRK1_uc009wsk.1_Silent_p.F597F	NM_002529	NP_002520	P04629	NTRK1_HUMAN	neurotrophic tyrosine kinase, receptor, type 1	600	Cytoplasmic (Potential).|Protein kinase.				activation of adenylate cyclase activity|activation of MAPKK activity|activation of phospholipase C activity|cell differentiation|nerve growth factor receptor signaling pathway|nervous system development|phosphatidylinositol-mediated signaling|Ras protein signal transduction	endosome|integral to plasma membrane	ATP binding|neurotrophin receptor activity|transmembrane receptor protein serine/threonine kinase activity|transmembrane receptor protein tyrosine kinase activity			lung(9)|ovary(6)|stomach(1)|central_nervous_system(1)	17	all_hematologic(923;0.0839)|Hepatocellular(266;0.158)				Imatinib(DB00619)	TCAACCGCTTCCTCCGGTACC	0.637			T	TPM3|TPR|TFG	papillary thyroid					TSP Lung(10;0.080)			7	1	---	---	---	---	PASS
FCRL5	83416	broad.mit.edu	37	1	157504586	157504586	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:157504586G>A	uc001fqu.2	-	8	1657	c.1499C>T	c.(1498-1500)TCC>TTC	p.S500F	FCRL5_uc009wsm.2_Missense_Mutation_p.S500F|FCRL5_uc010phv.1_Missense_Mutation_p.S500F|FCRL5_uc010phw.1_Missense_Mutation_p.S415F|FCRL5_uc001fqv.1_Missense_Mutation_p.S500F|FCRL5_uc010phx.1_Missense_Mutation_p.S251F	NM_031281	NP_112571	Q96RD9	FCRL5_HUMAN	Fc receptor-like 5	500	Extracellular (Potential).|Ig-like C2-type 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)				GATTTGTGGGGAACCTCTCTG	0.522													12	19	---	---	---	---	PASS
FCRL4	83417	broad.mit.edu	37	1	157548574	157548574	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:157548574G>A	uc001fqw.2	-	9	1482	c.1346C>T	c.(1345-1347)TCG>TTG	p.S449L	FCRL4_uc010phy.1_Intron	NM_031282	NP_112572	Q96PJ5	FCRL4_HUMAN	Fc receptor-like 4 precursor	449	Cytoplasmic (Potential).|ITIM motif 1.					integral to membrane|plasma membrane	receptor activity			ovary(2)|kidney(1)|skin(1)	4	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.245)				AACATACAACGACTGAAGCTC	0.552													5	3	---	---	---	---	PASS
FCRL4	83417	broad.mit.edu	37	1	157551311	157551311	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:157551311G>A	uc001fqw.2	-						FCRL4_uc010phy.1_Intron	NM_031282	NP_112572	Q96PJ5	FCRL4_HUMAN	Fc receptor-like 4 precursor							integral to membrane|plasma membrane	receptor activity			ovary(2)|kidney(1)|skin(1)	4	all_hematologic(112;0.0378)|Hepatocellular(266;0.178)	Prostate(1639;0.245)				GCAAAGAAAAGAGCACAAACC	0.597													7	20	---	---	---	---	PASS
FCRL2	79368	broad.mit.edu	37	1	157740377	157740377	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:157740377C>T	uc001fre.2	-	3	191	c.132G>A	c.(130-132)TGG>TGA	p.W44*	FCRL2_uc001frd.2_5'Flank|FCRL2_uc010phz.1_Nonsense_Mutation_p.W44*|FCRL2_uc009wsp.2_Nonsense_Mutation_p.W44*|FCRL2_uc010pia.1_Nonsense_Mutation_p.W44*	NM_030764	NP_110391	Q96LA5	FCRL2_HUMAN	Fc receptor-like 2 precursor	44	Ig-like C2-type 1.|Extracellular (Potential).				cell-cell signaling	integral to membrane|plasma membrane|soluble fraction	receptor activity|SH3/SH2 adaptor activity			ovary(1)|pancreas(1)	2	all_hematologic(112;0.0378)		LUSC - Lung squamous cell carcinoma(543;0.24)			TCTGAATTTTCCAGTTCTGTT	0.428													19	28	---	---	---	---	PASS
CD1E	913	broad.mit.edu	37	1	158326590	158326590	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158326590C>T	uc001fse.2	+	6	1310	c.1071C>T	c.(1069-1071)ACC>ACT	p.T357T	CD1E_uc001fsd.2_3'UTR|CD1E_uc001fsk.2_Silent_p.T267T|CD1E_uc001fsj.2_Silent_p.T200T|CD1E_uc001fsc.2_Silent_p.T168T|CD1E_uc010pig.1_RNA|CD1E_uc001fsa.2_Silent_p.T113T|CD1E_uc001fsf.2_Silent_p.T345T|CD1E_uc001fry.2_Silent_p.T290T|CD1E_uc001fsg.2_3'UTR|CD1E_uc001fsh.2_Silent_p.T156T|CD1E_uc001fsi.2_3'UTR|CD1E_uc009wsv.2_Silent_p.T258T|CD1E_uc001frz.2_Silent_p.T255T|CD1E_uc009wsw.2_Missense_Mutation_p.P72L	NM_030893	NP_112155	P15812	CD1E_HUMAN	CD1E antigen isoform a precursor	357					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)					CTCAGGACACCAAGAATTCAA	0.438													13	51	---	---	---	---	PASS
OR10K2	391107	broad.mit.edu	37	1	158390148	158390148	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158390148G>A	uc010pii.1	-	1	509	c.509C>T	c.(508-510)TCC>TTC	p.S170F		NM_001004476	NP_001004476	Q6IF99	O10K2_HUMAN	olfactory receptor, family 10, subfamily K,	170	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					TTGATTGGAGGAATAAAAAGG	0.473													22	52	---	---	---	---	PASS
OR10K2	391107	broad.mit.edu	37	1	158390491	158390491	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158390491G>A	uc010pii.1	-	1	166	c.166C>T	c.(166-168)CAT>TAT	p.H56Y		NM_001004476	NP_001004476	Q6IF99	O10K2_HUMAN	olfactory receptor, family 10, subfamily K,	56	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)	1	all_hematologic(112;0.0378)					ATGGGGATATGAAGGGCCCTG	0.498													51	71	---	---	---	---	PASS
OR10K1	391109	broad.mit.edu	37	1	158435712	158435712	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158435712G>A	uc010pij.1	+	1	361	c.361G>A	c.(361-363)GAT>AAT	p.D121N		NM_001004473	NP_001004473	Q8NGX5	O10K1_HUMAN	olfactory receptor, family 10, subfamily K,	121	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					CATGGGCTATGATCGCTATAT	0.532													22	74	---	---	---	---	PASS
OR10R2	343406	broad.mit.edu	37	1	158449910	158449910	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158449910C>T	uc010pik.1	+	1	243	c.243C>T	c.(241-243)TTC>TTT	p.F81F	uc001fso.1_RNA	NM_001004472	NP_001004472	Q8NGX6	O10R2_HUMAN	olfactory receptor, family 10, subfamily R,	81	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(2)|skin(1)	3	all_hematologic(112;0.0378)					CAATGTACTTCTTCCTTGGCA	0.413													31	99	---	---	---	---	PASS
OR6Y1	391112	broad.mit.edu	37	1	158517431	158517431	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158517431G>A	uc010pil.1	-	1	465	c.465C>T	c.(463-465)TTC>TTT	p.F155F		NM_001005189	NP_001005189	Q8NGX8	OR6Y1_HUMAN	olfactory receptor, family 6, subfamily Y,	155	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_hematologic(112;0.0378)					TGAGTCCACAGAACCAGCATC	0.468													9	17	---	---	---	---	PASS
SPTA1	6708	broad.mit.edu	37	1	158583513	158583513	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158583513C>T	uc001fst.1	-	50	7186	c.6987G>A	c.(6985-6987)GGG>GGA	p.G2329G		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	2329	EF-hand 2.|2 (Potential).				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)					GTTCCTACCTCCCTGGATCCA	0.493													12	30	---	---	---	---	PASS
SPTA1	6708	broad.mit.edu	37	1	158644457	158644457	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158644457C>T	uc001fst.1	-	9	1320	c.1121G>A	c.(1120-1122)CGA>CAA	p.R374Q		NM_003126	NP_003117	P02549	SPTA1_HUMAN	spectrin, alpha, erythrocytic 1	374	Spectrin 5.				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)					AGATGAAAATCGATGGTACCT	0.448													45	76	---	---	---	---	PASS
PYHIN1	149628	broad.mit.edu	37	1	158908261	158908261	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158908261C>T	uc001ftb.2	+	3	585	c.340C>T	c.(340-342)CCT>TCT	p.P114S	PYHIN1_uc001fta.3_Missense_Mutation_p.P114S|PYHIN1_uc001ftc.2_Missense_Mutation_p.P105S|PYHIN1_uc001ftd.2_Missense_Mutation_p.P114S|PYHIN1_uc001fte.2_Missense_Mutation_p.P105S	NM_152501	NP_689714	Q6K0P9	IFIX_HUMAN	pyrin and HIN domain family, member 1 alpha 1	114					cell cycle	nuclear speck				ovary(3)|pancreas(1)	4	all_hematologic(112;0.0378)					AGAAGTGTATCCTGCTACACC	0.433													33	30	---	---	---	---	PASS
PYHIN1	149628	broad.mit.edu	37	1	158913695	158913695	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:158913695G>A	uc001ftb.2	+	6	1363	c.1118G>A	c.(1117-1119)CGA>CAA	p.R373Q	PYHIN1_uc001ftc.2_Missense_Mutation_p.R364Q|PYHIN1_uc001ftd.2_Missense_Mutation_p.R373Q|PYHIN1_uc001fte.2_Missense_Mutation_p.R364Q	NM_152501	NP_689714	Q6K0P9	IFIX_HUMAN	pyrin and HIN domain family, member 1 alpha 1	373	HIN-200.				cell cycle	nuclear speck				ovary(3)|pancreas(1)	4	all_hematologic(112;0.0378)					GATAAGCTTCGACTCTTCTGC	0.368													23	28	---	---	---	---	PASS
CRP	1401	broad.mit.edu	37	1	159683901	159683901	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:159683901G>A	uc001ftw.2	-	2	193	c.89C>T	c.(88-90)CCC>CTC	p.P30L	CRP_uc001ftx.1_Missense_Mutation_p.P30L|CRP_uc001fty.1_5'Flank	NM_000567	NP_000558	P02741	CRP_HUMAN	C-reactive protein, pentraxin-related precursor	30	Pentaxin.				acute-phase response|negative regulation of lipid storage|negative regulation of macrophage derived foam cell differentiation|opsonization		choline binding|Gram-positive bacterial cell surface binding|low-density lipoprotein particle binding|metal ion binding|protein binding			ovary(1)	1	all_hematologic(112;0.0429)				Atorvastatin(DB01076)|Bezafibrate(DB01393)	CGACTCTTTGGGAAACACAAA	0.468													15	59	---	---	---	---	PASS
CRP	1401	broad.mit.edu	37	1	159683902	159683902	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:159683902G>A	uc001ftw.2	-	2	192	c.88C>T	c.(88-90)CCC>TCC	p.P30S	CRP_uc001ftx.1_Missense_Mutation_p.P30S|CRP_uc001fty.1_5'Flank	NM_000567	NP_000558	P02741	CRP_HUMAN	C-reactive protein, pentraxin-related precursor	30	Pentaxin.				acute-phase response|negative regulation of lipid storage|negative regulation of macrophage derived foam cell differentiation|opsonization		choline binding|Gram-positive bacterial cell surface binding|low-density lipoprotein particle binding|metal ion binding|protein binding			ovary(1)	1	all_hematologic(112;0.0429)				Atorvastatin(DB01076)|Bezafibrate(DB01393)	GACTCTTTGGGAAACACAAAA	0.468													15	57	---	---	---	---	PASS
FCRL6	343413	broad.mit.edu	37	1	159778967	159778967	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:159778967G>A	uc001fud.3	+	4	578	c.536G>A	c.(535-537)TGG>TAG	p.W179*	FCRL6_uc010pix.1_3'UTR|FCRL6_uc001fuc.2_Nonsense_Mutation_p.W186*|FCRL6_uc009wsz.1_Intron|FCRL6_uc009wta.2_Nonsense_Mutation_p.W179*	NM_001004310	NP_001004310	Q6DN72	FCRL6_HUMAN	Fc receptor-like 6 precursor	179	Ig-like C2-type 2.|Extracellular (Potential).					integral to membrane				ovary(2)|skin(1)	3	all_hematologic(112;0.0597)					GGGCTTTACTGGTGTGAGGTG	0.632													10	25	---	---	---	---	PASS
CCDC19	25790	broad.mit.edu	37	1	159857720	159857720	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:159857720C>T	uc001fui.2	-	5	517	c.499G>A	c.(499-501)GAG>AAG	p.E167K	CCDC19_uc009wtb.2_RNA|CCDC19_uc001fuj.2_RNA|CCDC19_uc001fuk.2_Missense_Mutation_p.E82K|CCDC19_uc001ful.2_Missense_Mutation_p.E82K|CCDC19_uc009wtc.1_Missense_Mutation_p.E167K	NM_012337	NP_036469	Q9UL16	CCD19_HUMAN	nasopharyngeal epithelium specific protein 1	167	Potential.					mitochondrion|soluble fraction				ovary(1)	1	all_hematologic(112;0.0597)		BRCA - Breast invasive adenocarcinoma(70;0.151)			TTGGCCACCTCCTCCAGGTCA	0.547													55	86	---	---	---	---	PASS
IGSF9	57549	broad.mit.edu	37	1	159900661	159900661	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:159900661G>A	uc001fur.2	-						IGSF9_uc001fuq.2_Intron|IGSF9_uc001fup.2_Intron	NM_001135050	NP_001128522	Q9P2J2	TUTLA_HUMAN	immunoglobulin superfamily, member 9 isoform a							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)			CTTGGCCCTGGGAGACATGAG	0.617													8	9	---	---	---	---	PASS
SLAMF9	89886	broad.mit.edu	37	1	159923180	159923180	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:159923180C>T	uc001fus.2	-	2	427	c.310G>A	c.(310-312)GAT>AAT	p.D104N	SLAMF9_uc009wtd.2_Missense_Mutation_p.D104N|SLAMF9_uc001fut.2_Intron	NM_033438	NP_254273	Q96A28	SLAF9_HUMAN	SLAM family member 9 isoform 1	104	Extracellular (Potential).					integral to membrane				ovary(1)	1	all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			AGCCCTGAATCCTCCCAGCTC	0.502													32	43	---	---	---	---	PASS
PIGM	93183	broad.mit.edu	37	1	160001449	160001449	+	Silent	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:160001449T>A	uc001fuv.1	-	1	335	c.81A>T	c.(79-81)CTA>CTT	p.L27L		NM_145167	NP_660150	Q9H3S5	PIGM_HUMAN	phosphatidylinositol glycan anchor biosynthesis,	27	Helical; (Potential).				C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|integral to membrane				ovary(2)|skin(1)	3	all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			CGACTCTGGCTAGAAAGGCCA	0.607													37	53	---	---	---	---	PASS
KCNJ10	3766	broad.mit.edu	37	1	160012275	160012275	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:160012275T>A	uc001fuw.1	-	2	198	c.48A>T	c.(46-48)GAA>GAT	p.E16D		NM_002241	NP_002232	P78508	IRK10_HUMAN	potassium inwardly-rectifying channel, subfamily	16	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)			GGGGCCGGCTTTCTGTCTGAG	0.537													14	29	---	---	---	---	PASS
IGSF8	93185	broad.mit.edu	37	1	160062267	160062267	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:160062267G>A	uc001fva.2	-	5	1576	c.1531C>T	c.(1531-1533)CGG>TGG	p.R511W	IGSF8_uc001fuz.2_Missense_Mutation_p.R511W|IGSF8_uc009wtf.2_Missense_Mutation_p.R511W	NM_052868	NP_443100	Q969P0	IGSF8_HUMAN	immunoglobulin superfamily, member 8	511	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)			CCTCCAGGCCGGACTCCCAGC	0.667													5	8	---	---	---	---	PASS
ATP1A4	480	broad.mit.edu	37	1	160124859	160124859	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:160124859G>A	uc001fve.3	+	3	711	c.232G>A	c.(232-234)GAA>AAA	p.E78K	ATP1A4_uc001fvf.3_RNA	NM_144699	NP_653300	Q13733	AT1A4_HUMAN	Na+/K+ -ATPase alpha 4 subunit isoform 1	78	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)			AAGGGCAAAGGAAATCCTGAC	0.507													26	96	---	---	---	---	PASS
CASQ1	844	broad.mit.edu	37	1	160163532	160163532	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:160163532C>T	uc010pja.1	+							NM_001231	NP_001222	P31415	CASQ1_HUMAN	calsequestrin 1							mitochondrial matrix|sarcoplasmic reticulum lumen|smooth endoplasmic reticulum	calcium ion binding			central_nervous_system(1)	1	all_cancers(52;2.56e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			CGGCTCACTCCCTAGGCCTAA	0.537													21	29	---	---	---	---	PASS
NCSTN	23385	broad.mit.edu	37	1	160322955	160322955	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:160322955C>T	uc001fvx.2	+	10	1231	c.1107C>T	c.(1105-1107)GCC>GCT	p.A369A	NCSTN_uc001fvy.2_Silent_p.A349A|NCSTN_uc010pjf.1_Silent_p.A231A|NCSTN_uc001fvz.2_Silent_p.A149A|NCSTN_uc010pjg.1_Silent_p.A111A	NM_015331	NP_056146	Q92542	NICA_HUMAN	nicastrin precursor	369	Extracellular (Potential).				amyloid precursor protein catabolic process|apoptosis|induction of apoptosis by extracellular signals|membrane protein ectodomain proteolysis|membrane protein intracellular domain proteolysis|nerve growth factor receptor signaling pathway|Notch receptor processing|Notch signaling pathway|positive regulation of catalytic activity|protein processing	endoplasmic reticulum|Golgi apparatus|integral to plasma membrane|melanosome	protein binding			ovary(1)|lung(1)	2	all_cancers(52;8.15e-18)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.111)			CCCAGGTGGCCTTAAGAACTT	0.493													4	31	---	---	---	---	PASS
SLAMF1	6504	broad.mit.edu	37	1	160589610	160589610	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:160589610C>T	uc001fwl.3	-	5	1166	c.820G>A	c.(820-822)GAA>AAA	p.E274K	SLAMF1_uc010pjk.1_Intron|SLAMF1_uc010pjl.1_Intron|SLAMF1_uc010pjm.1_Intron	NM_003037	NP_003028	Q13291	SLAF1_HUMAN	signaling lymphocytic activation molecule family	274	Cytoplasmic (Potential).|Ig-like V-type.				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)			CTTTTTTTTTCCACTGTTGTC	0.433													23	68	---	---	---	---	PASS
PVRL4	81607	broad.mit.edu	37	1	161043560	161043560	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:161043560C>T	uc001fxo.2	-	7	1482	c.1183G>A	c.(1183-1185)GAG>AAG	p.E395K	PVRL4_uc010pjy.1_Missense_Mutation_p.E74K|PVRL4_uc010pjz.1_Missense_Mutation_p.E129K	NM_030916	NP_112178	Q96NY8	PVRL4_HUMAN	poliovirus receptor-related 4 precursor	395	Cytoplasmic (Potential).				adherens junction organization|cell adhesion|cell junction assembly	adherens junction|extracellular region|integral to membrane				ovary(2)	2	all_cancers(52;8.9e-20)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00165)			ATGGAGTTCTCCCTGGTCAGG	0.612													14	25	---	---	---	---	PASS
KLHDC9	126823	broad.mit.edu	37	1	161068494	161068494	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:161068494G>A	uc001fxr.2	+	1	341	c.169G>A	c.(169-171)GAT>AAT	p.D57N	KLHDC9_uc001fxq.2_5'UTR|KLHDC9_uc001fxs.2_Missense_Mutation_p.D57N	NM_152366	NP_689579	Q8NEP7	KLDC9_HUMAN	kelch/ankyrin repeat containing cyclin A1	57	Kelch 1.										0	all_cancers(52;1.28e-19)|Breast(13;0.00188)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00165)			GCCCAGCAGCGATACGGTGGT	0.657													5	4	---	---	---	---	PASS
UFC1	51506	broad.mit.edu	37	1	161127061	161127061	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:161127061G>T	uc001fyd.3	+	3	463	c.209G>T	c.(208-210)TGG>TTG	p.W70L	USP21_uc010pkc.1_5'Flank|USP21_uc010pkd.1_5'Flank|USP21_uc010pke.1_5'Flank|USP21_uc010pkf.1_5'Flank	NM_016406	NP_057490	Q9Y3C8	UFC1_HUMAN	ubiquitin-fold modifier conjugating enzyme 1	70					protein ufmylation		protein binding|UFM1 conjugating enzyme activity				0	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			GGAAAATGCTGGTATATCCAT	0.433													5	107	---	---	---	---	PASS
USP21	27005	broad.mit.edu	37	1	161132393	161132393	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:161132393C>T	uc010pke.1	+						USP21_uc010pkc.1_Intron|USP21_uc010pkd.1_Intron|USP21_uc010pkf.1_Intron	NM_001014443	NP_001014443	Q9UK80	UBP21_HUMAN	ubiquitin-specific protease 21						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)			TTCCCCACTCCCATCCCAACA	0.493													3	11	---	---	---	---	PASS
ADAMTS4	9507	broad.mit.edu	37	1	161161863	161161863	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:161161863C>T	uc001fyt.3	-	8	2507	c.2079G>A	c.(2077-2079)AGG>AGA	p.R693R		NM_005099	NP_005090	O75173	ATS4_HUMAN	ADAM metallopeptidase with thrombospondin type 1	693	Spacer.				proteolysis|skeletal system development	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|protease binding|zinc ion binding			ovary(4)|central_nervous_system(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			ACCTGAATTTCCTGAAGGAGC	0.383											OREG0013940	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	30	45	---	---	---	---	PASS
ADAMTS4	9507	broad.mit.edu	37	1	161164011	161164011	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:161164011C>T	uc001fyt.3	-	5	1690	c.1262G>A	c.(1261-1263)GGG>GAG	p.G421E		NM_005099	NP_005090	O75173	ATS4_HUMAN	ADAM metallopeptidase with thrombospondin type 1	421	Peptidase M12B.				proteolysis|skeletal system development	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|protease binding|zinc ion binding			ovary(4)|central_nervous_system(1)	5	all_cancers(52;3.73e-19)|Breast(13;0.000577)|all_hematologic(112;0.093)		BRCA - Breast invasive adenocarcinoma(70;0.00275)			GAGACAGTGCCCTGGGAAGGG	0.587													11	36	---	---	---	---	PASS
UHMK1	127933	broad.mit.edu	37	1	162482360	162482360	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:162482360C>T	uc001gcc.1	+	5	1055	c.919C>T	c.(919-921)CCT>TCT	p.P307S	UHMK1_uc001gcb.1_Missense_Mutation_p.P233S|UHMK1_uc009wuu.1_Missense_Mutation_p.P307S	NM_175866	NP_787062	Q8TAS1	UHMK1_HUMAN	kinase interacting stathmin	307					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)			CTTTAGCATTCCTTTTGGTAA	0.353													33	50	---	---	---	---	PASS
UHMK1	127933	broad.mit.edu	37	1	162482508	162482508	+	Intron	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:162482508T>C	uc001gcc.1	+						UHMK1_uc001gcb.1_Intron|UHMK1_uc009wuu.1_Intron	NM_175866	NP_787062	Q8TAS1	UHMK1_HUMAN	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)			ATGATGAATTTTAACAGCCCC	0.368													14	36	---	---	---	---	PASS
DDR2	4921	broad.mit.edu	37	1	162745458	162745458	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:162745458G>A	uc001gcf.2	+	16	2338	c.1873G>A	c.(1873-1875)GAG>AAG	p.E625K	DDR2_uc001gcg.2_Missense_Mutation_p.E625K	NM_001014796	NP_001014796	Q16832	DDR2_HUMAN	discoidin domain receptor family, member 2	625	Cytoplasmic (Potential).|Protein kinase.				cell adhesion	integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			lung(2)|central_nervous_system(2)|ovary(1)|kidney(1)	6	all_hematologic(112;0.115)		BRCA - Breast invasive adenocarcinoma(70;0.113)			TTTTCTTAAGGAGATAAAGAT	0.418													12	52	---	---	---	---	PASS
RGS4	5999	broad.mit.edu	37	1	163042296	163042296	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:163042296G>A	uc009wuy.2	+						RGS4_uc001gcl.3_Intron|RGS4_uc009wuz.2_Intron|RGS4_uc009wva.2_Intron	NM_005613	NP_005604	P49798	RGS4_HUMAN	regulator of G-protein signaling 4 isoform 2						inactivation of MAPK activity|regulation of G-protein coupled receptor protein signaling pathway	plasma membrane	calmodulin binding|GTPase activator activity|signal transducer activity			ovary(2)|central_nervous_system(1)	3						AGAGGTAAGAGAAAAGGCCTT	0.413													9	22	---	---	---	---	PASS
NUF2	83540	broad.mit.edu	37	1	163313670	163313670	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:163313670C>T	uc001gcq.1	+						NUF2_uc001gcp.2_Intron|NUF2_uc001gcr.1_Intron|NUF2_uc009wvc.1_Intron	NM_145697	NP_663735	Q9BZD4	NUF2_HUMAN	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)					AGTGAGTTTTCTTTTTATTTT	0.249													11	17	---	---	---	---	PASS
NUF2	83540	broad.mit.edu	37	1	163318799	163318799	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:163318799G>A	uc001gcq.1	+	13	1489	c.1189G>A	c.(1189-1191)GAA>AAA	p.E397K	NUF2_uc001gcr.1_Missense_Mutation_p.E397K|NUF2_uc009wvc.1_Missense_Mutation_p.E350K	NM_145697	NP_663735	Q9BZD4	NUF2_HUMAN	NUF2, NDC80 kinetochore complex component	397	Interaction with the C-terminus of NDC80 and the SPBC24-SPBC25 subcomplex.|Potential.				cell division|chromosome segregation|mitotic prometaphase	condensed chromosome kinetochore|cytosol|Ndc80 complex|nucleus	protein binding	p.E397D(1)		ovary(3)|skin(1)	4	all_hematologic(923;0.101)					AATTAATCAAGAAATCCAAAA	0.333													12	25	---	---	---	---	PASS
DUSP27	92235	broad.mit.edu	37	1	167095388	167095388	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:167095388C>T	uc001geb.1	+	5	1020	c.1020C>T	c.(1018-1020)ACC>ACT	p.T340T		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	340					protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						AGCCCCTCACCCTCATAGACG	0.652													5	2	---	---	---	---	PASS
DUSP27	92235	broad.mit.edu	37	1	167097050	167097050	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:167097050G>A	uc001geb.1	+	5	2682	c.2682G>A	c.(2680-2682)GGG>GGA	p.G894G		NM_001080426	NP_001073895	Q5VZP5	DUS27_HUMAN	dual specificity phosphatase 27	894	Ser-rich.				protein dephosphorylation		protein tyrosine/serine/threonine phosphatase activity			ovary(3)	3						GTGCCATAGGGAGCTTCCGAT	0.507													11	33	---	---	---	---	PASS
TBX19	9095	broad.mit.edu	37	1	168262467	168262467	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:168262467C>T	uc001gfl.2	+	3	605	c.554C>T	c.(553-555)TCC>TTC	p.S185F	TBX19_uc001gfj.3_Missense_Mutation_p.S116F	NM_005149	NP_005140	O60806	TBX19_HUMAN	T-box 19	185	T-box.				anatomical structure morphogenesis	nucleus	DNA binding				0	all_hematologic(923;0.215)					ACAAACTGCTCCTTCCCTGAA	0.368													8	16	---	---	---	---	PASS
TBX19	9095	broad.mit.edu	37	1	168262468	168262468	+	Silent	SNP	C	T	T	rs142365505		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:168262468C>T	uc001gfl.2	+	3	606	c.555C>T	c.(553-555)TCC>TCT	p.S185S	TBX19_uc001gfj.3_Silent_p.S116S	NM_005149	NP_005140	O60806	TBX19_HUMAN	T-box 19	185	T-box.				anatomical structure morphogenesis	nucleus	DNA binding				0	all_hematologic(923;0.215)					CAAACTGCTCCTTCCCTGAAA	0.363													8	15	---	---	---	---	PASS
NME7	29922	broad.mit.edu	37	1	169267909	169267909	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:169267909G>A	uc001gfu.2	-	6	771	c.533C>T	c.(532-534)CCT>CTT	p.P178L	NME7_uc010plq.1_RNA|NME7_uc001gft.2_Missense_Mutation_p.P142L|NME7_uc001gfv.1_Missense_Mutation_p.P178L	NM_013330	NP_037462	Q9Y5B8	NDK7_HUMAN	nucleoside diphosphate kinase 7 isoform a	178					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)					AGAGTTTGCAGGTCCCAGCAG	0.433													23	38	---	---	---	---	PASS
F5	2153	broad.mit.edu	37	1	169510270	169510270	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:169510270C>T	uc001ggg.1	-	13	4203	c.4058G>A	c.(4057-4059)GGT>GAT	p.G1353D		NM_000130	NP_000121	P12259	FA5_HUMAN	coagulation factor V precursor	1353	2-19.|35 X 9 AA approximate tandem repeats of [TNP]-L-S-P-D-L-S-Q-T.|B.				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)	GGGCATCTGACCGAGGGCTGG	0.517													71	130	---	---	---	---	PASS
SELP	6403	broad.mit.edu	37	1	169586359	169586359	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:169586359C>T	uc001ggi.3	-	3	453	c.388G>A	c.(388-390)GAC>AAC	p.D130N	SELP_uc001ggh.2_5'UTR|SELP_uc009wvr.2_Missense_Mutation_p.D130N	NM_003005	NP_002996	P16109	LYAM3_HUMAN	selectin P precursor	130	Extracellular (Potential).|C-type lectin.				platelet activation|platelet degranulation|positive regulation of platelet activation	external side of plasma membrane|extracellular space|integral to plasma membrane|membrane fraction|platelet alpha granule membrane|platelet dense granule membrane|soluble fraction	fucose binding|glycosphingolipid binding|heparin binding|lipopolysaccharide binding|oligosaccharide binding|sialic acid binding			ovary(2)|skin(2)	4	all_hematologic(923;0.208)				Clopidogrel(DB00758)|Heparin(DB01109)|Tirofiban(DB00775)	TCCACGCAGTCCTCGTTGTTC	0.483													27	80	---	---	---	---	PASS
SELP	6403	broad.mit.edu	37	1	169586483	169586483	+	Silent	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:169586483G>T	uc001ggi.3	-	3	329	c.264C>A	c.(262-264)TCC>TCA	p.S88S	SELP_uc001ggh.2_5'UTR|SELP_uc009wvr.2_Silent_p.S88S	NM_003005	NP_002996	P16109	LYAM3_HUMAN	selectin P precursor	88	Extracellular (Potential).|C-type lectin.				platelet activation|platelet degranulation|positive regulation of platelet activation	external side of plasma membrane|extracellular space|integral to plasma membrane|membrane fraction|platelet alpha granule membrane|platelet dense granule membrane|soluble fraction	fucose binding|glycosphingolipid binding|heparin binding|lipopolysaccharide binding|oligosaccharide binding|sialic acid binding			ovary(2)|skin(2)	4	all_hematologic(923;0.208)				Clopidogrel(DB00758)|Heparin(DB01109)|Tirofiban(DB00775)	TCCAGTAGTAGGAGCTGTAGT	0.443													5	127	---	---	---	---	PASS
GORAB	92344	broad.mit.edu	37	1	170521499	170521499	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:170521499C>T	uc001gha.2	+	5	1108	c.1081C>T	c.(1081-1083)CCA>TCA	p.P361S	GORAB_uc009wvx.2_Missense_Mutation_p.P181S|GORAB_uc001ghb.2_Missense_Mutation_p.P181S|GORAB_uc001ghc.2_Missense_Mutation_p.P181S|GORAB_uc001ghd.2_Missense_Mutation_p.P154S	NM_152281	NP_689494	Q5T7V8	GORAB_HUMAN	golgin, RAB6-interacting isoform a	361	Necessary for interaction with RCHY1.					Golgi apparatus|nucleus					0						AGCTGTTTCCCCAAAGGTAGA	0.453													26	46	---	---	---	---	PASS
C1orf129	80133	broad.mit.edu	37	1	170940962	170940962	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:170940962C>T	uc001ghg.2	+	8	684	c.554C>T	c.(553-555)TCG>TTG	p.S185L	C1orf129_uc009wvy.2_5'UTR|C1orf129_uc010plz.1_Missense_Mutation_p.S185L	NM_025063	NP_079339	Q5TGP6	CA129_HUMAN	hypothetical protein LOC80133 isoform 2	185							binding			pancreas(1)	1	all_hematologic(923;0.0922)|Acute lymphoblastic leukemia(37;0.181)					GAAGATCCCTCGATTGTAAAA	0.443													54	93	---	---	---	---	PASS
FMO4	2329	broad.mit.edu	37	1	171293368	171293368	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:171293368C>T	uc001gho.2	+	5	630	c.413C>T	c.(412-414)GCT>GTT	p.A138V		NM_002022	NP_002013	P31512	FMO4_HUMAN	flavin containing monooxygenase 4	138					xenobiotic metabolic process	integral to membrane|intrinsic to endoplasmic reticulum membrane|microsome	flavin adenine dinucleotide binding|flavin-containing monooxygenase activity|NADP binding			kidney(2)|skin(1)	3	all_cancers(6;3.9e-08)|all_hematologic(923;0.088)|Acute lymphoblastic leukemia(37;0.181)					CAAAATAGAGCTGTCTTTGAT	0.473													106	187	---	---	---	---	PASS
C1orf9	51430	broad.mit.edu	37	1	172538220	172538220	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:172538220C>T	uc001giq.3	+	7	1110	c.794C>T	c.(793-795)CCA>CTA	p.P265L	C1orf9_uc010pmm.1_Missense_Mutation_p.P265L|C1orf9_uc009wwd.2_Missense_Mutation_p.P228L|C1orf9_uc010pmn.1_Missense_Mutation_p.P228L|C1orf9_uc010pmo.1_RNA	NM_014283	NP_055098	Q9UBS9	OSPT_HUMAN	chromosome 1 open reading frame 9 protein	265					multicellular organismal development|ossification	integral to membrane|rough endoplasmic reticulum membrane				ovary(2)	2		Breast(1374;0.212)		Colorectal(1306;3.98e-05)|KIRC - Kidney renal clear cell carcinoma(1967;0.00544)		CCCAAAGATCCAGAAGATATA	0.318													22	65	---	---	---	---	PASS
FASLG	356	broad.mit.edu	37	1	172634791	172634791	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:172634791G>A	uc001gis.2	+	4	638	c.481G>A	c.(481-483)GAA>AAA	p.E161K	FASLG_uc001git.2_3'UTR	NM_000639	NP_000630	P48023	TNFL6_HUMAN	fas ligand	161	Extracellular (Potential).				activation of caspase activity|activation of pro-apoptotic gene products|cell-cell signaling|immune response|induction of necroptosis by extracellular signals|induction of necroptosis of activated-T cells|necrotic cell death|negative regulation of angiogenesis|positive regulation of I-kappaB kinase/NF-kappaB cascade|signal transduction	extracellular space|integral to plasma membrane	cytokine activity			lung(2)|breast(1)	3						CATGCCTCTGGAATGGGAAGA	0.418													17	59	---	---	---	---	PASS
SLC9A11	284525	broad.mit.edu	37	1	173526526	173526526	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:173526526G>A	uc001giz.2	-	10	1591	c.1168C>T	c.(1168-1170)CCT>TCT	p.P390S	SLC9A11_uc009wwe.2_5'UTR|SLC9A11_uc010pmq.1_RNA	NM_178527	NP_848622	Q5TAH2	S9A11_HUMAN	solute carrier family 9, member 11	390	Helical; (Potential).				sodium ion transport	integral to membrane	ion channel activity|solute:hydrogen antiporter activity			ovary(2)	2						TAAACATCAGGAGCCCAGAGT	0.343													44	49	---	---	---	---	PASS
ZBTB37	84614	broad.mit.edu	37	1	173839578	173839578	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:173839578C>T	uc009wwp.1	+	3	491	c.215C>T	c.(214-216)TCA>TTA	p.S72L	GAS5_uc001gjj.2_5'Flank|GAS5_uc001gjk.2_5'Flank|SNORD74_uc001gjo.1_5'Flank|ZBTB37_uc001gjp.1_Missense_Mutation_p.S72L|ZBTB37_uc001gjq.3_Missense_Mutation_p.S72L|ZBTB37_uc001gjr.2_Missense_Mutation_p.S72L	NM_001122770	NP_001116242	Q5TC79	ZBT37_HUMAN	zinc finger and BTB domain containing 37 isoform	72	BTB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GTCTCCATTTCAGTCATCAAG	0.483													12	46	---	---	---	---	PASS
SERPINC1	462	broad.mit.edu	37	1	173878828	173878828	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:173878828A>T	uc001gjt.2	-	5	1134	c.1015T>A	c.(1015-1017)TGG>AGG	p.W339R		NM_000488	NP_000479	P01008	ANT3_HUMAN	serpin peptidase inhibitor, clade C, member 1	339					blood coagulation|regulation of proteolysis	extracellular space|plasma membrane	heparin binding|protease binding|serine-type endopeptidase inhibitor activity			ovary(1)	1					Enoxaparin(DB01225)|Fondaparinux sodium(DB00569)|Heparin(DB01109)	TCATCCAGCCACTCTTGCAGC	0.552													23	44	---	---	---	---	PASS
RC3H1	149041	broad.mit.edu	37	1	173930262	173930262	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:173930262G>A	uc001gju.3	-	12	2410	c.2323C>T	c.(2323-2325)CCT>TCT	p.P775S	RC3H1_uc010pms.1_Missense_Mutation_p.P775S|RC3H1_uc001gjv.2_Missense_Mutation_p.P775S|RC3H1_uc010pmt.1_Missense_Mutation_p.P775S	NM_172071	NP_742068	Q5TC82	RC3H1_HUMAN	roquin	775	Pro-rich.				cytoplasmic mRNA processing body assembly|negative regulation of activated T cell proliferation|negative regulation of B cell proliferation|negative regulation of germinal center formation|negative regulation of T-helper cell differentiation|nuclear-transcribed mRNA catabolic process|regulation of mRNA stability|regulation of T cell receptor signaling pathway	cytoplasmic mRNA processing body|stress granule	mRNA 3'-UTR binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						GGTGCAAAAGGAGGTGGAGAG	0.413													24	30	---	---	---	---	PASS
RABGAP1L	9910	broad.mit.edu	37	1	174363266	174363266	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:174363266C>T	uc001gjx.2	+	13	1888	c.1693C>T	c.(1693-1695)CGA>TGA	p.R565*	RABGAP1L_uc009wwq.1_Nonsense_Mutation_p.R577*|RABGAP1L_uc001gjw.2_Nonsense_Mutation_p.R528*|RABGAP1L_uc001gjy.2_Nonsense_Mutation_p.R233*|RABGAP1L_uc001gjz.2_Nonsense_Mutation_p.R212*	NM_014857	NP_055672	Q5R372	RBG1L_HUMAN	RAB GTPase activating protein 1-like isoform A	565	Rab-GAP TBC.				regulation of protein localization	early endosome|Golgi apparatus|nucleus	Rab GTPase activator activity			ovary(2)|lung(1)|kidney(1)	4						GGATAGATACCGAATTCTTAT	0.408													11	46	---	---	---	---	PASS
RABGAP1L	9910	broad.mit.edu	37	1	174363272	174363272	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:174363272C>T	uc001gjx.2	+	13	1894	c.1699C>T	c.(1699-1701)CTT>TTT	p.L567F	RABGAP1L_uc009wwq.1_Missense_Mutation_p.L579F|RABGAP1L_uc001gjw.2_Missense_Mutation_p.L530F|RABGAP1L_uc001gjy.2_Missense_Mutation_p.L235F|RABGAP1L_uc001gjz.2_Missense_Mutation_p.L214F	NM_014857	NP_055672	Q5R372	RBG1L_HUMAN	RAB GTPase activating protein 1-like isoform A	567	Rab-GAP TBC.				regulation of protein localization	early endosome|Golgi apparatus|nucleus	Rab GTPase activator activity			ovary(2)|lung(1)|kidney(1)	4						ATACCGAATTCTTATCACAAA	0.403													24	34	---	---	---	---	PASS
GPR52	9293	broad.mit.edu	37	1	174417516	174417516	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:174417516C>T	uc001gka.1	+	1	305	c.267C>T	c.(265-267)TTC>TTT	p.F89F	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	89	Helical; Name=2; (Potential).					integral to plasma membrane	G-protein coupled receptor activity			skin(1)	1						CTGATCTTTTCGTTGGAGTTA	0.423													40	107	---	---	---	---	PASS
TNR	7143	broad.mit.edu	37	1	175375791	175375791	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:175375791G>A	uc001gkp.1	-	1	141	c.60C>T	c.(58-60)ATC>ATT	p.I20I	TNR_uc009wwu.1_Silent_p.I20I|TNR_uc010pmz.1_Silent_p.I20I	NM_003285	NP_003276	Q92752	TENR_HUMAN	tenascin R precursor	20					axon guidance|cell adhesion|signal transduction	proteinaceous extracellular matrix				pancreas(5)|ovary(4)|central_nervous_system(1)|skin(1)	11	Renal(580;0.146)					AGCCCAGAAGGATCAGGTTGA	0.552													29	43	---	---	---	---	PASS
PAPPA2	60676	broad.mit.edu	37	1	176525760	176525760	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:176525760G>A	uc001gkz.2	+	2	1466	c.302G>A	c.(301-303)GGA>GAA	p.G101E	PAPPA2_uc001gky.1_Missense_Mutation_p.G101E|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	101					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						GACACTGAAGGAAATGCTGTG	0.567													45	80	---	---	---	---	PASS
PAPPA2	60676	broad.mit.edu	37	1	176526002	176526002	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:176526002G>A	uc001gkz.2	+	2	1708	c.544G>A	c.(544-546)GAA>AAA	p.E182K	PAPPA2_uc001gky.1_Missense_Mutation_p.E182K|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	182					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						AACCCTGAACGAACCCAAACC	0.587													24	56	---	---	---	---	PASS
PAPPA2	60676	broad.mit.edu	37	1	176640121	176640121	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:176640121G>A	uc001gkz.2	+	4	3171	c.2007G>A	c.(2005-2007)GTG>GTA	p.V669V	PAPPA2_uc001gky.1_Silent_p.V669V|PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	669	Metalloprotease.				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						ACATGAGTGTGAAGGAGCTGA	0.483													29	124	---	---	---	---	PASS
PAPPA2	60676	broad.mit.edu	37	1	176661375	176661375	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:176661375C>T	uc001gkz.2	+	6	3709	c.2545C>T	c.(2545-2547)CCA>TCA	p.P849S	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	849					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						CATCCCCATTCCACCTATGGT	0.512													57	90	---	---	---	---	PASS
PAPPA2	60676	broad.mit.edu	37	1	176709183	176709183	+	Silent	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:176709183T>A	uc001gkz.2	+	14	5166	c.4002T>A	c.(4000-4002)CTT>CTA	p.L1334L	PAPPA2_uc009www.2_RNA	NM_020318	NP_064714	Q9BXP8	PAPP2_HUMAN	pappalysin 2 isoform 1	1334					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						AGAATGTCCTTTTCCACCATA	0.483													21	76	---	---	---	---	PASS
ASTN1	460	broad.mit.edu	37	1	176992577	176992577	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:176992577G>A	uc001glc.2	-	7	1613	c.1401C>T	c.(1399-1401)CTC>CTT	p.L467L	ASTN1_uc001glb.1_Silent_p.L467L|ASTN1_uc001gld.1_Silent_p.L467L|ASTN1_uc009wwx.1_Silent_p.L467L|ASTN1_uc001gle.3_RNA	NM_004319	NP_004310	O14525	ASTN1_HUMAN	astrotactin isoform 1	467	EGF-like 1.				cell migration|neuron cell-cell adhesion	integral to membrane				ovary(6)|skin(5)|central_nervous_system(2)|large_intestine(1)|lung(1)	15						AGGGGTCCAGGAGCCGCCGGG	0.612													4	14	---	---	---	---	PASS
ANGPTL1	9068	broad.mit.edu	37	1	178820370	178820370	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:178820370C>T	uc001gma.2	-	6	1846	c.1370G>A	c.(1369-1371)GGA>GAA	p.G457E	RALGPS2_uc001gly.1_Intron|RALGPS2_uc001glz.2_Intron|RALGPS2_uc010pnb.1_Intron|ANGPTL1_uc001gmb.2_Missense_Mutation_p.G457E	NM_004673	NP_004664	O95841	ANGL1_HUMAN	angiopoietin-like 1 precursor	457	Fibrinogen C-terminal.					extracellular space	receptor binding				0						GTAATGGCCTCCTCTGTACCA	0.453													26	36	---	---	---	---	PASS
ANGPTL1	9068	broad.mit.edu	37	1	178820371	178820371	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:178820371C>A	uc001gma.2	-	6	1845	c.1369G>T	c.(1369-1371)GGA>TGA	p.G457*	RALGPS2_uc001gly.1_Intron|RALGPS2_uc001glz.2_Intron|RALGPS2_uc010pnb.1_Intron|ANGPTL1_uc001gmb.2_Nonsense_Mutation_p.G457*	NM_004673	NP_004664	O95841	ANGL1_HUMAN	angiopoietin-like 1 precursor	457	Fibrinogen C-terminal.					extracellular space	receptor binding				0						TAATGGCCTCCTCTGTACCAT	0.453													26	36	---	---	---	---	PASS
ANGPTL1	9068	broad.mit.edu	37	1	178822871	178822871	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:178822871C>T	uc001gma.2	-	4	1351	c.875G>A	c.(874-876)GGG>GAG	p.G292E	RALGPS2_uc001gly.1_Intron|RALGPS2_uc001glz.2_Intron|RALGPS2_uc010pnb.1_Intron|ANGPTL1_uc001gmb.2_Missense_Mutation_p.G292E|ANGPTL1_uc010pnc.1_Missense_Mutation_p.G214E	NM_004673	NP_004664	O95841	ANGL1_HUMAN	angiopoietin-like 1 precursor	292	Fibrinogen C-terminal.					extracellular space	receptor binding				0						CATATAAATCCCACTGACCGA	0.373													17	40	---	---	---	---	PASS
ABL2	27	broad.mit.edu	37	1	179087825	179087825	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:179087825G>A	uc001gmj.3	-	7	1407	c.1120C>T	c.(1120-1122)CGA>TGA	p.R374*	ABL2_uc010pnf.1_Nonsense_Mutation_p.R374*|ABL2_uc010png.1_Nonsense_Mutation_p.R353*|ABL2_uc010pnh.1_Nonsense_Mutation_p.R353*|ABL2_uc009wxe.2_Nonsense_Mutation_p.R353*|ABL2_uc001gmg.3_Nonsense_Mutation_p.R359*|ABL2_uc001gmi.3_Nonsense_Mutation_p.R359*|ABL2_uc001gmh.3_Nonsense_Mutation_p.R338*|ABL2_uc010pne.1_Nonsense_Mutation_p.R338*|ABL2_uc009wxf.1_Nonsense_Mutation_p.R359*|ABL2_uc001gmk.2_Nonsense_Mutation_p.R338*	NM_007314	NP_009298	P42684	ABL2_HUMAN	arg tyrosine kinase isoform b	374	Protein kinase.				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)	TTGCATTCTCGGAGGTAATCC	0.428			T	ETV6	AML								16	64	---	---	---	---	PASS
C1orf125	126859	broad.mit.edu	37	1	179414223	179414223	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:179414223A>T	uc001gmo.2	+	16	1809	c.1682A>T	c.(1681-1683)AAT>ATT	p.N561I	C1orf125_uc009wxg.2_Intron|C1orf125_uc001gmn.1_Missense_Mutation_p.N349I|C1orf125_uc010pnl.1_RNA|C1orf125_uc001gmp.2_Missense_Mutation_p.N561I	NM_144696	NP_653297	Q5T1B0	AXDN1_HUMAN	hypothetical protein LOC126859 isoform 1	561											0						GGGATATTTAATCGGCATAAA	0.363													19	55	---	---	---	---	PASS
NPHS2	7827	broad.mit.edu	37	1	179520325	179520325	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:179520325C>T	uc001gmq.3	-	8	1220	c.1135G>A	c.(1135-1137)GAC>AAC	p.D379N	C1orf125_uc009wxg.2_Intron|C1orf125_uc001gmo.2_Intron|C1orf125_uc001gmp.2_Intron|C1orf125_uc009wxh.2_Intron|NPHS2_uc009wxi.2_Missense_Mutation_p.D311N|C1orf125_uc001gmr.2_RNA	NM_014625	NP_055440	Q9NP85	PODO_HUMAN	podocin	379	Cytoplasmic (Potential).				excretion	integral to plasma membrane	protein binding				0						ATGGGAGAGTCTTTCTTTTTA	0.493													9	20	---	---	---	---	PASS
TDRD5	163589	broad.mit.edu	37	1	179659939	179659939	+	Nonsense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:179659939T>A	uc001gnf.1	+	17	3057	c.2807T>A	c.(2806-2808)TTG>TAG	p.L936*	TDRD5_uc010pnp.1_Nonsense_Mutation_p.L990*|TDRD5_uc001gnh.1_Nonsense_Mutation_p.L491*	NM_173533	NP_775804	Q8NAT2	TDRD5_HUMAN	tudor domain containing 5	936					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						TCTTTGATTTTGTCTTATGAG	0.458													11	33	---	---	---	---	PASS
QSOX1	5768	broad.mit.edu	37	1	180166160	180166160	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:180166160C>T	uc001gnz.2	+	12	2307	c.2232C>T	c.(2230-2232)CAC>CAT	p.H744H	QSOX1_uc001gny.2_Intron|QSOX1_uc001goa.2_Intron|QSOX1_uc001goc.2_Intron|FLJ23867_uc001god.3_5'Flank	NM_002826	NP_002817	O00391	QSOX1_HUMAN	quiescin Q6 sulfhydryl oxidase 1 isoform a	744					cell redox homeostasis|protein thiol-disulfide exchange	extracellular space|integral to Golgi membrane	flavin-linked sulfhydryl oxidase activity			ovary(1)|central_nervous_system(1)	2						ATGCTGGCCACCCTGCAGCCT	0.642													6	9	---	---	---	---	PASS
CACNA1E	777	broad.mit.edu	37	1	181479711	181479711	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:181479711G>A	uc001gow.2	+	2	530	c.365G>A	c.(364-366)CGA>CAA	p.R122Q	CACNA1E_uc009wxr.2_Missense_Mutation_p.R29Q|CACNA1E_uc009wxs.2_Missense_Mutation_p.R29Q	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	122	I.|Extracellular (Potential).				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						CCCATGTCCCGAAGACTGGTA	0.527													9	17	---	---	---	---	PASS
CACNA1E	777	broad.mit.edu	37	1	181702138	181702138	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:181702138G>A	uc001gow.2	+	20	3081	c.2916G>A	c.(2914-2916)ACG>ACA	p.T972T	CACNA1E_uc009wxs.2_Silent_p.T860T|CACNA1E_uc001gox.1_Silent_p.T198T|CACNA1E_uc009wxt.2_Silent_p.T198T	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	calcium channel, voltage-dependent, R type,	972	Cytoplasmic (Potential).				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						AGGAGCCAACGATCCAAGAAG	0.552													9	15	---	---	---	---	PASS
CACNA1E	777	broad.mit.edu	37	1	181735674	181735674	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:181735674C>T	uc001gow.2	+						CACNA1E_uc009wxs.2_Intron|CACNA1E_uc001gox.1_Intron|CACNA1E_uc009wxt.2_Intron	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	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						TCTCTGCTTTCCTTCCAGGCC	0.483													12	16	---	---	---	---	PASS
CACNA1E	777	broad.mit.edu	37	1	181750669	181750669	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:181750669C>T	uc001gow.2	+						CACNA1E_uc009wxs.2_Intron|CACNA1E_uc009wxt.2_Intron	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	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						GGTAGACCACCCCTTCCTTTG	0.542													6	8	---	---	---	---	PASS
CACNA1E	777	broad.mit.edu	37	1	181753905	181753905	+	Splice_Site	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:181753905G>A	uc001gow.2	+	41	5743	c.5578_splice	c.e41+1	p.A1860_splice	CACNA1E_uc009wxs.2_Splice_Site_p.A1748_splice|CACNA1E_uc009wxt.2_Splice_Site_p.A1086_splice	NM_000721	NP_000712	Q15878	CAC1E_HUMAN	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						ATGCCCAAAGGTTTGGGTCTT	0.522													4	6	---	---	---	---	PASS
RGS8	85397	broad.mit.edu	37	1	182636100	182636100	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:182636100C>T	uc010pnw.1	-	4	293	c.35G>A	c.(34-36)GGG>GAG	p.G12E	RGS8_uc001gpn.1_Missense_Mutation_p.G12E|RGS8_uc001gpm.1_Missense_Mutation_p.G30E	NM_001102450	NP_001095920	P57771	RGS8_HUMAN	regulator of G-protein signalling 8 isoform 2	12					negative regulation of signal transduction	cytoplasm|plasma membrane	GTPase activator activity|signal transducer activity			ovary(1)	1						AGTCCTCATCCCTTTGTTCCT	0.537													15	48	---	---	---	---	PASS
LAMC1	3915	broad.mit.edu	37	1	183087213	183087213	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:183087213C>T	uc001gpy.3	+	11	2179	c.1922C>T	c.(1921-1923)CCT>CTT	p.P641L		NM_002293	NP_002284	P11047	LAMC1_HUMAN	laminin, gamma 1 precursor	641	Laminin IV type A.				axon guidance|cell migration|endoderm development|extracellular matrix disassembly|hemidesmosome assembly|positive regulation of epithelial cell proliferation|protein complex assembly|substrate adhesion-dependent cell spreading	extracellular space|laminin-1 complex|laminin-10 complex|laminin-11 complex	extracellular matrix structural constituent			ovary(3)|large_intestine(1)|kidney(1)	5					Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Tenecteplase(DB00031)	GCTCTTACCCCTTTTGAATTT	0.423													13	40	---	---	---	---	PASS
RGL1	23179	broad.mit.edu	37	1	183852930	183852930	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:183852930C>T	uc001gqo.2	+	6	778	c.621C>T	c.(619-621)CCC>CCT	p.P207P	RGL1_uc010pof.1_Silent_p.P12P|RGL1_uc001gqm.2_Silent_p.P242P|RGL1_uc010pog.1_Silent_p.P205P|RGL1_uc010poh.1_Silent_p.P205P|RGL1_uc010poi.1_Silent_p.P207P	NM_015149	NP_055964	Q9NZL6	RGL1_HUMAN	ral guanine nucleotide dissociation	207					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						ATGGGCTTCCCAACACGATCT	0.458													15	39	---	---	---	---	PASS
RGL1	23179	broad.mit.edu	37	1	183857601	183857601	+	Intron	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:183857601C>A	uc001gqo.2	+						RGL1_uc010pof.1_Intron|RGL1_uc001gqm.2_Intron|RGL1_uc010pog.1_Intron|RGL1_uc010poh.1_Intron|RGL1_uc010poi.1_Intron	NM_015149	NP_055964	Q9NZL6	RGL1_HUMAN	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						AATCACTCCCCATGCAGGAAT	0.403													6	110	---	---	---	---	PASS
GLT25D2	23127	broad.mit.edu	37	1	183944313	183944313	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:183944313G>T	uc001gqr.2	-	3	782	c.410C>A	c.(409-411)CCA>CAA	p.P137Q	GLT25D2_uc010poj.1_Missense_Mutation_p.P137Q|GLT25D2_uc001gqs.2_Missense_Mutation_p.P17Q	NM_015101	NP_055916	Q8IYK4	GT252_HUMAN	glycosyltransferase 25 domain containing 2	137					lipopolysaccharide biosynthetic process	endoplasmic reticulum lumen	procollagen galactosyltransferase activity			ovary(1)|breast(1)	2						CCGGGAGGTTGGCCAGTGCTT	0.328													15	22	---	---	---	---	PASS
FAM129A	116496	broad.mit.edu	37	1	184765127	184765127	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:184765127C>A	uc001gra.2	-	14	1965	c.1771G>T	c.(1771-1773)GGG>TGG	p.G591W	FAM129A_uc001grb.1_Missense_Mutation_p.G354W	NM_052966	NP_443198	Q9BZQ8	NIBAN_HUMAN	niban protein isoform 2	591					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						TGGTTTGACCCTGTGGGGGGC	0.498													25	33	---	---	---	---	PASS
FAM129A	116496	broad.mit.edu	37	1	184853813	184853813	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:184853813C>T	uc001gra.2	-	5	749	c.555G>A	c.(553-555)AAG>AAA	p.K185K	FAM129A_uc009wyh.1_Intron|FAM129A_uc009wyi.1_Intron	NM_052966	NP_443198	Q9BZQ8	NIBAN_HUMAN	niban protein isoform 2	185					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						CACTAAACCTCTTCTGGTCAG	0.607													14	17	---	---	---	---	PASS
IVNS1ABP	10625	broad.mit.edu	37	1	185267192	185267192	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:185267192G>A	uc001grl.2	-	15	2527	c.1904C>T	c.(1903-1905)CCC>CTC	p.P635L	IVNS1ABP_uc001gri.2_Missense_Mutation_p.P295L|IVNS1ABP_uc001grj.2_Missense_Mutation_p.P295L|IVNS1ABP_uc009wyj.2_Missense_Mutation_p.P417L|IVNS1ABP_uc009wyk.2_RNA	NM_006469	NP_006460	Q9Y6Y0	NS1BP_HUMAN	influenza virus NS1A binding protein	635	Kelch 6.				interspecies interaction between organisms|response to virus|RNA splicing|transcription from RNA polymerase III promoter	cytoplasm|cytoskeleton|spliceosomal complex|transcription factor complex				ovary(4)|central_nervous_system(1)	5						CTTTGTATAGGGGCTCCATTC	0.383													21	72	---	---	---	---	PASS
HMCN1	83872	broad.mit.edu	37	1	186039829	186039829	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:186039829C>T	uc001grq.1	+	52	8308	c.8079C>T	c.(8077-8079)ACC>ACT	p.T2693T		NM_031935	NP_114141	Q96RW7	HMCN1_HUMAN	hemicentin 1 precursor	2693	Ig-like C2-type 25.				response to stimulus|visual perception	basement membrane	calcium ion binding			ovary(22)|skin(1)	23						ACACTCTGACCTTGGAATGTG	0.423													24	35	---	---	---	---	PASS
PRG4	10216	broad.mit.edu	37	1	186277347	186277347	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:186277347G>A	uc001gru.3	+	7	2547	c.2496G>A	c.(2494-2496)AAG>AAA	p.K832K	PRG4_uc001grt.3_Silent_p.K791K|PRG4_uc009wyl.2_Silent_p.K739K|PRG4_uc009wym.2_Silent_p.K698K|PRG4_uc010poo.1_Intron	NM_005807	NP_005798	Q92954	PRG4_HUMAN	proteoglycan 4 isoform A	832	59 X 8 AA repeats of K-X-P-X-P-T-T-X.|57.				cell proliferation|immune response	extracellular region	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						CTACCCCCAAGGAGCCTGCAC	0.582													62	165	---	---	---	---	PASS
TPR	7175	broad.mit.edu	37	1	186300714	186300714	+	Splice_Site	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:186300714C>T	uc001grv.2	-	39	5902	c.5605_splice	c.e39-1	p.E1869_splice		NM_003292	NP_003283	P12270	TPR_HUMAN	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)		TAACTTCTTCCTGTATCATAA	0.343			T	NTRK1	papillary thyroid								9	32	---	---	---	---	PASS
RGS13	6003	broad.mit.edu	37	1	192628569	192628569	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:192628569G>A	uc001gsj.2	+	7	677	c.396G>A	c.(394-396)ATG>ATA	p.M132I	RGS13_uc001gsk.2_Missense_Mutation_p.M132I	NM_002927	NP_002918	O14921	RGS13_HUMAN	regulator of G-protein signalling 13	132	RGS.					plasma membrane	GTPase activator activity|signal transducer activity				0						ATATGCATATGGAAAGGGATT	0.363													10	27	---	---	---	---	PASS
RGS13	6003	broad.mit.edu	37	1	192628570	192628570	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:192628570G>A	uc001gsj.2	+	7	678	c.397G>A	c.(397-399)GAA>AAA	p.E133K	RGS13_uc001gsk.2_Missense_Mutation_p.E133K	NM_002927	NP_002918	O14921	RGS13_HUMAN	regulator of G-protein signalling 13	133	RGS.					plasma membrane	GTPase activator activity|signal transducer activity				0						TATGCATATGGAAAGGGATTC	0.363													10	28	---	---	---	---	PASS
TROVE2	6738	broad.mit.edu	37	1	193051315	193051315	+	Splice_Site	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:193051315G>T	uc001gss.2	+	7	1379	c.1204_splice	c.e7-1	p.V402_splice	TROVE2_uc001gst.1_Splice_Site_p.V127_splice|TROVE2_uc001gsu.1_Splice_Site_p.V127_splice|TROVE2_uc001gsv.1_Splice_Site_p.V402_splice|TROVE2_uc001gsw.2_Splice_Site_p.V402_splice|TROVE2_uc009wyp.2_Splice_Site_p.V402_splice|TROVE2_uc009wyq.2_Splice_Site_p.V402_splice|TROVE2_uc001gsx.1_Splice_Site_p.V402_splice	NM_004600	NP_004591	P10155	RO60_HUMAN	TROVE domain family, member 2 isoform 2						transcription from RNA polymerase III promoter	cytoplasm|nucleus|ribonucleoprotein complex	protein binding|RNA binding				0						GAATTTTTCAGGTTGTCACAC	0.323													4	48	---	---	---	---	PASS
GLRX2	51022	broad.mit.edu	37	1	193070287	193070287	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:193070287G>T	uc001gsz.1	-	2	211	c.167C>A	c.(166-168)CCT>CAT	p.P56H	GLRX2_uc001gta.1_Missense_Mutation_p.P57H	NM_197962	NP_932066	Q9NS18	GLRX2_HUMAN	glutaredoxin 2 isoform 2	56					apoptosis|cell differentiation|cell redox homeostasis|DNA protection|electron transport chain|glutathione metabolic process|protein thiol-disulfide exchange|regulation of signal transduction|regulation of transcription, DNA-dependent|response to hydrogen peroxide|response to organic substance|response to redox state|response to temperature stimulus|transport	mitochondrion|nucleus	2 iron, 2 sulfur cluster binding|arsenate reductase (glutaredoxin) activity|electron carrier activity|glutathione disulfide oxidoreductase activity|metal ion binding|protein disulfide oxidoreductase activity				0					Glutathione(DB00143)	CTGGTTCACAGGCGCCGTCGC	0.333													4	38	---	---	---	---	PASS
CFH	3075	broad.mit.edu	37	1	196658568	196658568	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:196658568C>T	uc001gtj.3	+	8	1223	c.983C>T	c.(982-984)CCA>CTA	p.P328L	CFH_uc001gti.3_Missense_Mutation_p.P328L|CFH_uc009wyw.2_Intron|CFH_uc009wyx.2_Missense_Mutation_p.P264L	NM_000186	NP_000177	P08603	CFAH_HUMAN	complement factor H isoform a precursor	328	Sushi 6.				complement activation, alternative pathway	extracellular space				skin(4)|ovary(1)|breast(1)	6						TGTGATTATCCAGACATTAAA	0.269													6	18	---	---	---	---	PASS
CFH	3075	broad.mit.edu	37	1	196706613	196706613	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:196706613C>T	uc001gtj.3	+	17	2845	c.2605C>T	c.(2605-2607)CCA>TCA	p.P869S		NM_000186	NP_000177	P08603	CFAH_HUMAN	complement factor H isoform a precursor	869	Sushi 15.				complement activation, alternative pathway	extracellular space				skin(4)|ovary(1)|breast(1)	6						AGAAAAAATTCCATGTTCACA	0.294													8	10	---	---	---	---	PASS
CFHR2	3080	broad.mit.edu	37	1	196920100	196920100	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:196920100G>A	uc001gtq.1	+	3	449	c.372G>A	c.(370-372)GAG>GAA	p.E124E	CFHR2_uc001gtr.1_Intron	NM_005666	NP_005657	P36980	FHR2_HUMAN	H factor (complement)-like 3 precursor	124	Sushi 2.					extracellular region				skin(2)|ovary(1)	3						AAAACAATGAGAACAACATTT	0.393													9	37	---	---	---	---	PASS
ASPM	259266	broad.mit.edu	37	1	197059368	197059368	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:197059368A>T	uc001gtu.2	-	24	10044	c.9787T>A	c.(9787-9789)TAT>AAT	p.Y3263N	ASPM_uc001gtv.2_Missense_Mutation_p.Y1678N|ASPM_uc001gtw.3_Missense_Mutation_p.Y1111N	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	3263					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						AGGTGCTTATATGTCAAAAGG	0.333													12	46	---	---	---	---	PASS
ASPM	259266	broad.mit.edu	37	1	197099062	197099062	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:197099062G>A	uc001gtu.2	-	8	2869	c.2612C>T	c.(2611-2613)CCT>CTT	p.P871L	ASPM_uc001gtv.2_Missense_Mutation_p.P871L|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	871					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						ATACAGGTGAGGAACAGTGGG	0.279													17	46	---	---	---	---	PASS
ASPM	259266	broad.mit.edu	37	1	197099063	197099063	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:197099063G>A	uc001gtu.2	-	8	2868	c.2611C>T	c.(2611-2613)CCT>TCT	p.P871S	ASPM_uc001gtv.2_Missense_Mutation_p.P871S|ASPM_uc001gtw.3_Intron	NM_018136	NP_060606	Q8IZT6	ASPM_HUMAN	asp (abnormal spindle)-like, microcephaly	871					mitosis	cytoplasm|nucleus	calmodulin binding			ovary(4)|central_nervous_system(2)	6						TACAGGTGAGGAACAGTGGGG	0.279													17	46	---	---	---	---	PASS
CRB1	23418	broad.mit.edu	37	1	197297777	197297777	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:197297777C>T	uc001gtz.2	+	2	431	c.296C>T	c.(295-297)CCT>CTT	p.P99L	CRB1_uc010poz.1_Missense_Mutation_p.P30L|CRB1_uc001gty.1_Missense_Mutation_p.P99L|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Missense_Mutation_p.P99L|CRB1_uc010ppb.1_Missense_Mutation_p.P99L	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	99	Extracellular (Potential).|EGF-like 2.				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						TGCAAATGTCCTCCTGGGTAC	0.488													8	25	---	---	---	---	PASS
CRB1	23418	broad.mit.edu	37	1	197390651	197390651	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:197390651G>A	uc001gtz.2	+	6	1828	c.1693G>A	c.(1693-1695)GGA>AGA	p.G565R	CRB1_uc010poz.1_Missense_Mutation_p.G496R|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Missense_Mutation_p.G453R|CRB1_uc010ppb.1_Missense_Mutation_p.G565R|CRB1_uc010ppc.1_RNA|CRB1_uc010ppd.1_Missense_Mutation_p.G46R|CRB1_uc001gub.1_Missense_Mutation_p.G214R	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	565	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						CACCAGCGATGGAGAGTGGCA	0.463													32	60	---	---	---	---	PASS
CRB1	23418	broad.mit.edu	37	1	197404159	197404159	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:197404159G>A	uc001gtz.2	+	9	3301	c.3166G>A	c.(3166-3168)GAC>AAC	p.D1056N	CRB1_uc010poz.1_Missense_Mutation_p.D1032N|CRB1_uc010ppa.1_RNA|CRB1_uc009wza.2_Missense_Mutation_p.D944N|CRB1_uc010ppb.1_Intron|CRB1_uc010ppd.1_Missense_Mutation_p.D537N|CRB1_uc001gub.1_Missense_Mutation_p.D705N	NM_201253	NP_957705	P82279	CRUM1_HUMAN	crumbs homolog 1 precursor	1056	Extracellular (Potential).|Laminin G-like 3.				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						AATGGAAGTGGACAACGAAAC	0.458													19	50	---	---	---	---	PASS
DENND1B	163486	broad.mit.edu	37	1	197479786	197479786	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:197479786G>A	uc010ppe.1	-	22	2410	c.2072C>T	c.(2071-2073)TCA>TTA	p.S691L	DENND1B_uc010ppf.1_RNA	NM_001142795	NP_001136267	Q6P3S1	DEN1B_HUMAN	DENN/MADD domain containing 1B isoform 1	Error:Variant_position_missing_in_Q6P3S1_after_alignment						clathrin-coated vesicle|cytosol	guanyl-nucleotide exchange factor activity				0						CAGATCATCTGAAATCTGGCT	0.443													16	42	---	---	---	---	PASS
DENND1B	163486	broad.mit.edu	37	1	197479927	197479927	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:197479927T>C	uc010ppe.1	-	22	2269	c.1931A>G	c.(1930-1932)AAA>AGA	p.K644R	DENND1B_uc010ppf.1_RNA	NM_001142795	NP_001136267	Q6P3S1	DEN1B_HUMAN	DENN/MADD domain containing 1B isoform 1	Error:Variant_position_missing_in_Q6P3S1_after_alignment						clathrin-coated vesicle|cytosol	guanyl-nucleotide exchange factor activity				0						GTTTTCCTCTTTCAGGATAAA	0.493													20	32	---	---	---	---	PASS
LHX9	56956	broad.mit.edu	37	1	197890426	197890426	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:197890426C>T	uc001guk.1	+						LHX9_uc001gui.1_Intron|LHX9_uc001guj.1_Intron	NM_020204	NP_064589	Q9NQ69	LHX9_HUMAN	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						TCAACTCTTTCCTTCCAGAAG	0.597													9	25	---	---	---	---	PASS
PTPRC	5788	broad.mit.edu	37	1	198723441	198723441	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:198723441C>T	uc001gur.1	+	32	3727	c.3547C>T	c.(3547-3549)CTC>TTC	p.L1183F	PTPRC_uc001gus.1_Missense_Mutation_p.L1135F|PTPRC_uc001gut.1_Missense_Mutation_p.L1022F	NM_002838	NP_002829	P08575	PTPRC_HUMAN	protein tyrosine phosphatase, receptor type, C	1183	Tyrosine-protein phosphatase 2.|Cytoplasmic (Potential).				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						TTTGTTAAATCTCTTAGAAAG	0.373													12	40	---	---	---	---	PASS
KIF14	9928	broad.mit.edu	37	1	200569565	200569565	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:200569565C>T	uc010ppk.1	-	12	2658	c.2219G>A	c.(2218-2220)CGA>CAA	p.R740Q	KIF14_uc010ppj.1_Missense_Mutation_p.R249Q	NM_014875	NP_055690	Q15058	KIF14_HUMAN	kinesin family member 14	740	Potential.				microtubule-based movement	cytoplasm|microtubule|nucleus|spindle	ATP binding|microtubule motor activity|protein binding			breast(3)|ovary(2)|skin(2)	7						GAGCCTGTATCGTTCAGGGTC	0.388													37	55	---	---	---	---	PASS
CAMSAP1L1	23271	broad.mit.edu	37	1	200823942	200823942	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:200823942C>T	uc001gvl.2	+						CAMSAP1L1_uc001gvk.2_Intron|CAMSAP1L1_uc001gvm.2_Intron	NM_203459	NP_982284	Q08AD1	CAMP2_HUMAN	calmodulin regulated spectrin-associated protein							cytoplasm|microtubule	protein binding			ovary(2)|large_intestine(1)|pancreas(1)	4						CGTGTTTTTTCAGTCTCTAGC	0.363													5	27	---	---	---	---	PASS
CACNA1S	779	broad.mit.edu	37	1	201061124	201061124	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:201061124G>T	uc001gvv.2	-	4	744	c.517C>A	c.(517-519)CTC>ATC	p.L173I		NM_000069	NP_000060	Q13698	CAC1S_HUMAN	calcium channel, voltage-dependent, L type,	173	Helical; Name=S4 of repeat I; (Potential).|I.				axon guidance	I band|T-tubule|voltage-gated calcium channel complex	high voltage-gated calcium channel activity			ovary(3)|central_nervous_system(1)|skin(1)	5					Magnesium Sulfate(DB00653)|Verapamil(DB00661)	ACCAGCCGGAGGGGTCTGAGC	0.612													4	38	---	---	---	---	PASS
RNPEP	6051	broad.mit.edu	37	1	201970775	201970775	+	Intron	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:201970775C>A	uc001gxd.2	+						RNPEP_uc001gxe.2_Intron|RNPEP_uc001gxf.2_Intron	NM_020216	NP_064601	Q9H4A4	AMPB_HUMAN	arginyl aminopeptidase						leukotriene biosynthetic process		epoxide hydrolase activity|zinc ion binding			upper_aerodigestive_tract(1)	1				KIRC - Kidney renal clear cell carcinoma(1967;3.23e-08)|Colorectal(1306;0.005)		AAAGAGCTTTCCCTCCTCACA	0.517													16	55	---	---	---	---	PASS
GPR37L1	9283	broad.mit.edu	37	1	202092462	202092462	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:202092462C>T	uc001gxj.2	+	1	434	c.371C>T	c.(370-372)ACC>ATC	p.T124I		NM_004767	NP_004758	O60883	ETBR2_HUMAN	G-protein coupled receptor 37 like 1 precursor	124	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity|protein binding			ovary(1)|central_nervous_system(1)	2						TATCCGGTGACCGAGAGCTCC	0.602													7	27	---	---	---	---	PASS
LGR6	59352	broad.mit.edu	37	1	202276448	202276448	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:202276448C>T	uc001gxu.2	+						LGR6_uc001gxv.2_Intron|LGR6_uc009xab.2_Intron|LGR6_uc001gxw.2_Intron	NM_001017403	NP_001017403	Q9HBX8	LGR6_HUMAN	leucine-rich repeat-containing G protein-coupled							integral to membrane|plasma membrane	protein-hormone receptor activity			large_intestine(4)|ovary(3)|skin(2)|pancreas(1)	10						CACACCCTCTCTGCCTGCAGG	0.597													13	36	---	---	---	---	PASS
KDM5B	10765	broad.mit.edu	37	1	202705412	202705412	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:202705412C>T	uc001gyf.2	-	21	3309	c.3193G>A	c.(3193-3195)GAG>AAG	p.E1065K	KDM5B_uc009xag.2_Missense_Mutation_p.E1101K|KDM5B_uc001gyg.1_Missense_Mutation_p.E907K	NM_006618	NP_006609	Q9UGL1	KDM5B_HUMAN	jumonji, AT rich interactive domain 1B	1065					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						GCCTGAACCTCAGCTACTAGG	0.433													7	39	---	---	---	---	PASS
FMOD	2331	broad.mit.edu	37	1	203317278	203317278	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:203317278G>A	uc001gzr.2	-	2	257	c.121C>T	c.(121-123)CCC>TCC	p.P41S	FMOD_uc010pqi.1_RNA	NM_002023	NP_002014	Q06828	FMOD_HUMAN	fibromodulin precursor	41					transforming growth factor beta receptor complex assembly	extracellular space|proteinaceous extracellular matrix				ovary(2)|breast(1)	3			BRCA - Breast invasive adenocarcinoma(75;0.171)			GGGTCATAGGGATCGTAGTAG	0.597													9	39	---	---	---	---	PASS
PIK3C2B	5287	broad.mit.edu	37	1	204393843	204393843	+	3'UTR	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:204393843G>A	uc001haw.2	-	34					PIK3C2B_uc010pqv.1_3'UTR	NM_002646	NP_002637	O00750	P3C2B_HUMAN	phosphoinositide-3-kinase, class 2 beta						cell communication|phosphatidylinositol-mediated signaling	endoplasmic reticulum|microsome|nucleus|phosphatidylinositol 3-kinase complex|plasma membrane	1-phosphatidylinositol-3-kinase activity|ATP binding|phosphatidylinositol binding|phosphatidylinositol-4-phosphate 3-kinase activity|protein binding			lung(2)|breast(2)|stomach(1)|prostate(1)|central_nervous_system(1)	7	all_cancers(21;0.00347)|all_neural(3;0.0218)|Glioma(3;0.0382)|all_epithelial(62;0.171)|Breast(84;0.179)|Prostate(682;0.227)		GBM - Glioblastoma multiforme(2;2.69e-45)|all cancers(3;1.66e-30)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|BRCA - Breast invasive adenocarcinoma(75;0.143)|Epithelial(59;0.193)			TCCTACCACAGAGGCCAGAAT	0.612													11	22	---	---	---	---	PASS
MDM4	4194	broad.mit.edu	37	1	204506633	204506633	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:204506633C>T	uc001hba.2	+						MDM4_uc001hbd.1_Intron|MDM4_uc010pqw.1_Intron|MDM4_uc010pqx.1_Intron|MDM4_uc001hay.1_Intron|MDM4_uc001hbb.2_Intron|MDM4_uc010pqy.1_Intron|MDM4_uc001hbc.2_Intron|MDM4_uc009xbe.1_Intron	NM_002393	NP_002384	O15151	MDM4_HUMAN	mouse double minute 4 homolog						apoptosis|cell proliferation|cellular response to hypoxia|G0 to G1 transition|negative regulation of apoptosis|negative regulation of cell cycle arrest|negative regulation of cell proliferation|negative regulation of protein catabolic process|negative regulation of transcription from RNA polymerase II promoter|protein complex assembly|protein stabilization	nucleus	enzyme binding|zinc ion binding			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3	all_cancers(21;0.00146)|all_neural(3;0.0218)|Glioma(3;0.0382)|Breast(84;0.112)|all_epithelial(62;0.118)|Prostate(682;0.227)		GBM - Glioblastoma multiforme(2;3.15e-47)|all cancers(3;3.56e-32)|KIRC - Kidney renal clear cell carcinoma(13;0.0584)|Kidney(21;0.0934)|Epithelial(59;0.143)|BRCA - Breast invasive adenocarcinoma(75;0.143)			AAGGTAAAATCACCACACGGT	0.443			A		GBM|bladder|retinoblastoma								16	31	---	---	---	---	PASS
RBBP5	5929	broad.mit.edu	37	1	205068920	205068920	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:205068920G>A	uc001hbu.1	-	9	1057	c.927C>T	c.(925-927)ATC>ATT	p.I309I	RBBP5_uc010prd.1_Silent_p.I344I|RBBP5_uc001hbv.1_Silent_p.I309I|RBBP5_uc010pre.1_Silent_p.I176I	NM_005057	NP_005048	Q15291	RBBP5_HUMAN	retinoblastoma binding protein 5	309	WD 6.				histone H3-K4 methylation|regulation of transcription, DNA-dependent|response to estrogen stimulus|transcription, DNA-dependent	MLL1 complex|Set1C/COMPASS complex	methylated histone residue binding|transcription regulatory region DNA binding			lung(1)	1	Breast(84;0.0505)		BRCA - Breast invasive adenocarcinoma(75;0.0923)			TGGATGCTATGATGGGTCGAA	0.353													28	60	---	---	---	---	PASS
RBBP5	5929	broad.mit.edu	37	1	205068922	205068922	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:205068922T>A	uc001hbu.1	-	9	1055	c.925A>T	c.(925-927)ATC>TTC	p.I309F	RBBP5_uc010prd.1_Missense_Mutation_p.I344F|RBBP5_uc001hbv.1_Missense_Mutation_p.I309F|RBBP5_uc010pre.1_Missense_Mutation_p.I176F	NM_005057	NP_005048	Q15291	RBBP5_HUMAN	retinoblastoma binding protein 5	309	WD 6.				histone H3-K4 methylation|regulation of transcription, DNA-dependent|response to estrogen stimulus|transcription, DNA-dependent	MLL1 complex|Set1C/COMPASS complex	methylated histone residue binding|transcription regulatory region DNA binding			lung(1)	1	Breast(84;0.0505)		BRCA - Breast invasive adenocarcinoma(75;0.0923)			GATGCTATGATGGGTCGAACA	0.353													29	59	---	---	---	---	PASS
DSTYK	25778	broad.mit.edu	37	1	205128819	205128819	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:205128819G>A	uc001hbw.2	-						DSTYK_uc001hbx.2_Intron	NM_015375	NP_056190	Q6XUX3	DUSTY_HUMAN	receptor interacting protein kinase 5 isoform 1							cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(1)	1						TGGAGGGAAGGAGAGAGATCT	0.517													9	17	---	---	---	---	PASS
NUAK2	81788	broad.mit.edu	37	1	205272892	205272892	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:205272892C>T	uc001hce.2	-	7	1700	c.1573G>A	c.(1573-1575)GAT>AAT	p.D525N		NM_030952	NP_112214	Q9H093	NUAK2_HUMAN	NUAK family, SNF1-like kinase, 2	525					actin cytoskeleton organization|apoptosis|cellular response to glucose starvation|negative regulation of apoptosis		ATP binding|magnesium ion binding|protein serine/threonine kinase activity			ovary(3)|stomach(1)|breast(1)	5	Breast(84;0.186)		BRCA - Breast invasive adenocarcinoma(75;0.117)			GCGAGTTCATCCAGGGAGCCG	0.642													12	12	---	---	---	---	PASS
CDK18	5129	broad.mit.edu	37	1	205499823	205499823	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:205499823C>T	uc001hcr.2	+	15	1689	c.1470C>T	c.(1468-1470)TTC>TTT	p.F490F	CDK18_uc001hcp.2_Silent_p.F460F|CDK18_uc001hcq.2_Silent_p.F460F|CDK18_uc010prj.1_Silent_p.F371F|CDK18_uc001hcs.2_Silent_p.F371F|CDK18_uc001hct.2_RNA	NM_212503	NP_997668	Q07002	CDK18_HUMAN	PCTAIRE protein kinase 3 isoform a	458							ATP binding|cyclin-dependent protein kinase activity|protein binding|signal transducer activity			stomach(2)	2						GCTTGGCCTTCCAGCAGCCAG	0.637													5	18	---	---	---	---	PASS
SLC45A3	85414	broad.mit.edu	37	1	205632640	205632640	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:205632640G>A	uc001hda.1	-	3	618	c.279C>T	c.(277-279)TCC>TCT	p.S93S	SLC45A3_uc010prn.1_5'Flank|SLC45A3_uc010pro.1_5'UTR|SLC45A3_uc010prp.1_Intron|ELK4_uc010prq.1_Intron	NM_033102	NP_149093	Q96JT2	S45A3_HUMAN	prostein	93	Helical; Name=3; (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)			GGATGCCCAAGGACAGTGCCC	0.672			T	ETV1|ETV5|ELK4|ERG	prostate 								8	13	---	---	---	---	PASS
SRGAP2	23380	broad.mit.edu	37	1	206634422	206634422	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:206634422G>T	uc001hdy.2	+	20	2945	c.2612G>T	c.(2611-2613)CGG>CTG	p.R871L	SRGAP2_uc010pru.1_Missense_Mutation_p.R794L	NM_015326	NP_056141	O75044	FNBP2_HUMAN	SLIT-ROBO Rho GTPase activating protein 2	958	Potential.				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)					AATGAGCTACGGGAACTAGAA	0.557													4	46	---	---	---	---	PASS
PIGR	5284	broad.mit.edu	37	1	207105159	207105159	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:207105159G>A	uc001hez.2	-						PIGR_uc009xbz.2_Intron	NM_002644	NP_002635	P01833	PIGR_HUMAN	polymeric immunoglobulin receptor precursor							extracellular region|integral to plasma membrane	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3						TGTCCGGGAGGAAGAGGAGTT	0.552													21	38	---	---	---	---	PASS
PIGR	5284	broad.mit.edu	37	1	207110615	207110615	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:207110615G>A	uc001hez.2	-	4	1054	c.870C>T	c.(868-870)GCC>GCT	p.A290A	PIGR_uc009xbz.2_Silent_p.A290A	NM_002644	NP_002635	P01833	PIGR_HUMAN	polymeric immunoglobulin receptor precursor	290	Ig-like V-type 3.|Extracellular (Potential).					extracellular region|integral to plasma membrane	protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3						CAAAGGCTGGGGCCCTCTTCC	0.607													17	28	---	---	---	---	PASS
FCAMR	83953	broad.mit.edu	37	1	207140980	207140980	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:207140980C>T	uc001hfa.3	-	2	556	c.56G>A	c.(55-57)GGA>GAA	p.G19E	FCAMR_uc001hfb.2_Missense_Mutation_p.G19E|FCAMR_uc009xca.1_Missense_Mutation_p.G19E|FCAMR_uc001hfc.2_Intron	NM_001122980	NP_001116452	Q8WWV6	FCAMR_HUMAN	Fc receptor, IgA, IgM, high affinity isoform 2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment						integral to membrane|plasma membrane	receptor activity			ovary(1)	1						CACTTCTCTTCCTCTCCTCAC	0.249													20	79	---	---	---	---	PASS
C4BPA	722	broad.mit.edu	37	1	207307914	207307914	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:207307914C>T	uc001hfo.2	+	9	1444	c.1250C>T	c.(1249-1251)CCC>CTC	p.P417L		NM_000715	NP_000706	P04003	C4BPA_HUMAN	complement component 4 binding protein, alpha	417	Sushi 6.				complement activation, classical pathway|innate immune response	extracellular region	protein binding			large_intestine(1)|ovary(1)|central_nervous_system(1)	3						ACGTGGAGTCCCCGAACACCA	0.393													24	61	---	---	---	---	PASS
CR1	1378	broad.mit.edu	37	1	207791529	207791529	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:207791529G>A	uc001hfy.2	+	34	5793	c.5653G>A	c.(5653-5655)GGA>AGA	p.G1885R	CR1_uc001hfx.2_Missense_Mutation_p.G2335R	NM_000573	NP_000564	P17927	CR1_HUMAN	complement receptor 1 isoform F precursor	1885	Sushi 29.|Extracellular (Potential).				complement activation, classical pathway|innate immune response	integral to plasma membrane	complement receptor activity			ovary(3)	3						CCTGTTAGTGGGAAAGGGCTT	0.443													29	102	---	---	---	---	PASS
PLXNA2	5362	broad.mit.edu	37	1	208212981	208212981	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:208212981G>A	uc001hgz.2	-	24	5243	c.4485C>T	c.(4483-4485)ATC>ATT	p.I1495I		NM_025179	NP_079455	O75051	PLXA2_HUMAN	plexin A2 precursor	1495	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				ovary(2)|central_nervous_system(1)	3				OV - Ovarian serous cystadenocarcinoma(81;0.199)		TCTTGTACTCGATCTGCTGCC	0.587													23	40	---	---	---	---	PASS
MIR205	406988	broad.mit.edu	37	1	209605512	209605512	+	RNA	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:209605512C>T	hsa-mir-205|MI0000285	+			c.35C>T			LOC642587_uc009xcn.2_Intron|LOC642587_uc010psk.1_RNA																	0						CTTCTCTTGTCCTTCATTCCA	0.463													15	35	---	---	---	---	PASS
TRAF3IP3	80342	broad.mit.edu	37	1	209935985	209935985	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:209935985G>A	uc001hho.2	+	4	761	c.471G>A	c.(469-471)AAG>AAA	p.K157K	TRAF3IP3_uc001hhl.2_Silent_p.K137K|TRAF3IP3_uc001hhm.1_Silent_p.K157K|TRAF3IP3_uc001hhn.2_Silent_p.K137K|TRAF3IP3_uc009xcr.2_Silent_p.K157K	NM_025228	NP_079504	Q9Y228	T3JAM_HUMAN	TRAF3-interacting JNK-activating modulator	157	Cytoplasmic (Potential).					integral to membrane	protein binding			large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.045)		CTCCCATCAAGAAGCCACCCA	0.597													13	33	---	---	---	---	PASS
LPGAT1	9926	broad.mit.edu	37	1	211961039	211961039	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:211961039G>A	uc001hiu.2	-	4	1201	c.388C>T	c.(388-390)CAT>TAT	p.H130Y	LPGAT1_uc001hiv.2_Missense_Mutation_p.H130Y	NM_014873	NP_055688	Q92604	LGAT1_HUMAN	lysophosphatidylglycerol acyltransferase 1	130					phospholipid biosynthetic process	endoplasmic reticulum membrane|integral to membrane	acyltransferase activity			ovary(1)|skin(1)	2				OV - Ovarian serous cystadenocarcinoma(81;0.00773)|all cancers(67;0.0765)|Epithelial(68;0.114)		TTAAAAATATGATCCATCAAC	0.348													10	28	---	---	---	---	PASS
ANGEL2	90806	broad.mit.edu	37	1	213180545	213180545	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:213180545G>A	uc001hjz.2	-						ANGEL2_uc010pto.1_Intron|ANGEL2_uc010ptp.1_Intron|ANGEL2_uc001hka.2_Intron|ANGEL2_uc010ptq.1_Intron|ANGEL2_uc001hkb.2_Intron	NM_144567	NP_653168	Q5VTE6	ANGE2_HUMAN	LOC90806 protein												0				OV - Ovarian serous cystadenocarcinoma(81;0.00446)|all cancers(67;0.0169)|Epithelial(68;0.0921)|GBM - Glioblastoma multiforme(131;0.185)		AAGTACCTTGGAAGAAAAAAA	0.338													17	58	---	---	---	---	PASS
RPS6KC1	26750	broad.mit.edu	37	1	213290757	213290757	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:213290757G>A	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	Q96S38	KS6C1_HUMAN	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)		CGGAAGGTAAGAGATTTTAAT	0.338													12	28	---	---	---	---	PASS
PROX1	5629	broad.mit.edu	37	1	214171001	214171001	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:214171001C>T	uc001hkh.2	+	2	1395	c.1123C>T	c.(1123-1125)CCC>TCC	p.P375S	PROX1_uc001hkg.1_Missense_Mutation_p.P375S	NM_002763	NP_002754	Q92786	PROX1_HUMAN	prospero homeobox 1	375					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)		TTCGGCCAAGCCCTCCCGCCA	0.542													12	48	---	---	---	---	PASS
USH2A	7399	broad.mit.edu	37	1	215821889	215821889	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:215821889G>A	uc001hku.1	-	66	14950	c.14563C>T	c.(14563-14565)CCC>TCC	p.P4855S		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	4855	Extracellular (Potential).|Fibronectin type-III 34.				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)		ACACCATTGGGGAACATGGGG	0.493										HNSCC(13;0.011)			25	33	---	---	---	---	PASS
USH2A	7399	broad.mit.edu	37	1	215955428	215955428	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:215955428G>A	uc001hku.1	-	54	11083	c.10696C>T	c.(10696-10698)CAG>TAG	p.Q3566*		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	3566	Extracellular (Potential).|Fibronectin type-III 20.				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)		GCTTTCAGCTGATATGAATAT	0.433										HNSCC(13;0.011)			13	44	---	---	---	---	PASS
USH2A	7399	broad.mit.edu	37	1	215960216	215960216	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:215960216C>T	uc001hku.1	-	52	10570	c.10183G>A	c.(10183-10185)GAA>AAA	p.E3395K		NM_206933	NP_996816	O75445	USH2A_HUMAN	usherin isoform B	3395	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)		TCTTTGGTTTCCTGAGTCAAG	0.433										HNSCC(13;0.011)			5	14	---	---	---	---	PASS
USH2A	7399	broad.mit.edu	37	1	216166355	216166355	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:216166355C>T	uc001hku.1	-							NM_206933	NP_996816	O75445	USH2A_HUMAN	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)		TAAAAGAGTTCACTTACCATT	0.398										HNSCC(13;0.011)	OREG0014251	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	91	165	---	---	---	---	PASS
RAB3GAP2	25782	broad.mit.edu	37	1	220384317	220384317	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:220384317G>A	uc010puk.1	-	5	578	c.414C>T	c.(412-414)ATC>ATT	p.I138I	RAB3GAP2_uc001hmf.2_RNA|RAB3GAP2_uc001hmg.2_5'UTR|RAB3GAP2_uc010pum.1_Silent_p.I138I	NM_012414	NP_036546	Q9H2M9	RBGPR_HUMAN	rab3 GTPase-activating protein, non-catalytic	138					intracellular protein transport	cytoplasm|soluble fraction	GTPase activator activity|protein heterodimerization activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(131;0.0443)		TTGCTAGTGGGATACATAGAG	0.313													5	17	---	---	---	---	PASS
HHIPL2	79802	broad.mit.edu	37	1	222712088	222712088	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:222712088G>A	uc001hnh.1	-	5	1537	c.1479C>T	c.(1477-1479)GGC>GGT	p.G493G		NM_024746	NP_079022	Q6UWX4	HIPL2_HUMAN	HHIP-like 2 precursor	493					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)		CCACTGCATGGCCATAAGCAT	0.473													8	36	---	---	---	---	PASS
TAF1A	9015	broad.mit.edu	37	1	222742992	222742992	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:222742992C>T	uc009xdz.1	-	7	943	c.754G>A	c.(754-756)GAT>AAT	p.D252N	TAF1A_uc001hni.1_Missense_Mutation_p.D138N|TAF1A_uc001hnj.2_Missense_Mutation_p.D252N|TAF1A_uc001hnk.2_Missense_Mutation_p.D138N|TAF1A_uc010pur.1_Missense_Mutation_p.D252N	NM_139352	NP_647603	Q15573	TAF1A_HUMAN	TBP-associated factor 1A isoform 2	252					regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter	RNA polymerase I transcription factor complex	DNA binding				0				GBM - Glioblastoma multiforme(131;0.0186)		CCATCTCGATCCCCATAGAAT	0.333													11	17	---	---	---	---	PASS
TAF1A	9015	broad.mit.edu	37	1	222742994	222742994	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:222742994C>T	uc009xdz.1	-	7	941	c.752G>A	c.(751-753)GGG>GAG	p.G251E	TAF1A_uc001hni.1_Missense_Mutation_p.G137E|TAF1A_uc001hnj.2_Missense_Mutation_p.G251E|TAF1A_uc001hnk.2_Missense_Mutation_p.G137E|TAF1A_uc010pur.1_Missense_Mutation_p.G251E	NM_139352	NP_647603	Q15573	TAF1A_HUMAN	TBP-associated factor 1A isoform 2	251					regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter	RNA polymerase I transcription factor complex	DNA binding				0				GBM - Glioblastoma multiforme(131;0.0186)		ATCTCGATCCCCATAGAATTC	0.333													12	17	---	---	---	---	PASS
DISP1	84976	broad.mit.edu	37	1	223178588	223178588	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:223178588C>T	uc001hnu.1	+	8	3996	c.3849C>T	c.(3847-3849)GGC>GGT	p.G1283G		NM_032890	NP_116279	Q96F81	DISP1_HUMAN	dispatched A	1283					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)		TGAACTATGGCCCACACTCTT	0.532													36	59	---	---	---	---	PASS
LBR	3930	broad.mit.edu	37	1	225607146	225607146	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:225607146G>A	uc001hoy.2	-	5	602	c.459C>T	c.(457-459)TTC>TTT	p.F153F	LBR_uc001hoz.2_Silent_p.F153F|LBR_uc001hpa.1_Silent_p.F153F	NM_002296	NP_002287	Q14739	LBR_HUMAN	lamin B receptor	153	Nucleoplasmic (Potential).				cholesterol biosynthetic process	integral to nuclear inner membrane	chromo shadow domain binding|delta14-sterol reductase activity|DNA binding|lamin binding|receptor activity			ovary(1)|skin(1)	2	Breast(184;0.165)			GBM - Glioblastoma multiforme(131;0.117)		GTGACAAACTGAATTTTTCCT	0.294													7	22	---	---	---	---	PASS
EPHX1	2052	broad.mit.edu	37	1	226026587	226026587	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:226026587G>A	uc001hpk.2	+						EPHX1_uc001hpl.2_Intron	NM_001136018	NP_001129490	P07099	HYEP_HUMAN	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)					AGAAGGGTACGGGGCTGCTAG	0.617													11	14	---	---	---	---	PASS
EPHX1	2052	broad.mit.edu	37	1	226026588	226026588	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:226026588G>A	uc001hpk.2	+						EPHX1_uc001hpl.2_Intron	NM_001136018	NP_001129490	P07099	HYEP_HUMAN	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)					GAAGGGTACGGGGCTGCTAGA	0.617													11	14	---	---	---	---	PASS
C1orf95	375057	broad.mit.edu	37	1	226789699	226789699	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:226789699C>T	uc010pvn.1	+							NM_001003665	NP_001003665	Q69YW2	CA095_HUMAN	hypothetical protein LOC375057							integral to membrane				ovary(1)	1	Breast(184;0.133)	Prostate(94;0.0885)		GBM - Glioblastoma multiforme(131;0.113)		TTTGCTTCTTCCTCACAGGCT	0.582													10	7	---	---	---	---	PASS
GUK1	2987	broad.mit.edu	37	1	228333716	228333716	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:228333716C>T	uc001hsh.2	+						GUK1_uc001hsi.2_Intron|GUK1_uc001hsj.2_5'UTR|GUK1_uc010pvv.1_Intron	NM_000858	NP_000849	Q16774	KGUA_HUMAN	guanylate kinase 1 isoform b						nucleobase, nucleoside and nucleotide interconversion|purine nucleotide metabolic process	cytosol	ATP binding|guanylate kinase activity				0		Prostate(94;0.0405)				GGTGACAGGTCTCTCTGCTAG	0.662													15	18	---	---	---	---	PASS
OBSCN	84033	broad.mit.edu	37	1	228402727	228402727	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:228402727C>T	uc009xez.1	+	5	1800	c.1756C>T	c.(1756-1758)CAG>TAG	p.Q586*	OBSCN_uc001hsn.2_Nonsense_Mutation_p.Q586*|uc001hsm.1_5'Flank	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	586	Fibronectin type-III 1.				apoptosis|cell differentiation|induction of apoptosis by extracellular signals|multicellular organismal development|nerve growth factor receptor signaling pathway|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|M band|Z disc	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity|Rho guanyl-nucleotide exchange factor activity|structural constituent of muscle|titin binding			stomach(8)|large_intestine(7)|breast(5)|ovary(4)|skin(2)|central_nervous_system(1)|pancreas(1)	28		Prostate(94;0.0405)				GGGGAACTTCCAGTTCCGAGT	0.587													8	16	---	---	---	---	PASS
OBSCN	84033	broad.mit.edu	37	1	228479641	228479641	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:228479641C>T	uc009xez.1	+	39	10426	c.10382C>T	c.(10381-10383)GCC>GTC	p.A3461V	OBSCN_uc001hsn.2_Missense_Mutation_p.A3461V|OBSCN_uc001hsq.1_Missense_Mutation_p.A717V	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	3461	Ig-like 35.				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)				AATGAAGAGGCCGTGGAAGGG	0.587													17	34	---	---	---	---	PASS
OBSCN	84033	broad.mit.edu	37	1	228509746	228509746	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:228509746C>T	uc009xez.1	+	55	15248	c.15204C>T	c.(15202-15204)GCC>GCT	p.A5068A	OBSCN_uc001hsn.2_Silent_p.A5068A	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	5068					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)				TCACTGAGGCCCGCCAGGCGG	0.607													5	10	---	---	---	---	PASS
OBSCN	84033	broad.mit.edu	37	1	228553854	228553854	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:228553854G>A	uc009xez.1	+	83	19187	c.19143G>A	c.(19141-19143)GAG>GAA	p.E6381E	OBSCN_uc001hsr.1_Silent_p.E1010E	NM_001098623	NP_001092093	Q5VST9	OBSCN_HUMAN	obscurin, cytoskeletal calmodulin and	6381	Ig-like 54.				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)				CTATCATTGAGGGCGACCCAC	0.652													8	28	---	---	---	---	PASS
HIST3H2A	92815	broad.mit.edu	37	1	228645439	228645439	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:228645439G>A	uc001hsy.2	-	1	122	c.80C>T	c.(79-81)CCC>CTC	p.P27L	HIST3H2BB_uc001hsz.2_5'Flank	NM_033445	NP_254280	Q7L7L0	H2A3_HUMAN	histone cluster 3, H2a	27					nucleosome assembly	nucleosome|nucleus	DNA binding			ovary(1)	1		Prostate(94;0.183)				GCGGCCCACGGGGAACTGCAG	0.667													5	15	---	---	---	---	PASS
ABCB10	23456	broad.mit.edu	37	1	229663027	229663027	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:229663027G>A	uc001htp.3	-	9	1717	c.1674C>T	c.(1672-1674)ATC>ATT	p.I558I		NM_012089	NP_036221	Q9NRK6	ABCBA_HUMAN	ATP-binding cassette, sub-family B, member 10	558	Mitochondrial intermembrane (Potential).|ABC transporter.|Mitochondrial matrix (Potential).			IRQLNP -> NPSAKPS (in Ref. 6; AAA84438).		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)				TTAGCTGACGGATGTCATGGC	0.428													29	63	---	---	---	---	PASS
ABCB10	23456	broad.mit.edu	37	1	229676480	229676480	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:229676480C>T	uc001htp.3	-	5	1119	c.1076G>A	c.(1075-1077)GGA>GAA	p.G359E		NM_012089	NP_036221	Q9NRK6	ABCBA_HUMAN	ATP-binding cassette, sub-family B, member 10	359	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)				TCTTACATTTCCAATACGTTC	0.388													12	36	---	---	---	---	PASS
ABCB10	23456	broad.mit.edu	37	1	229676481	229676481	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:229676481C>T	uc001htp.3	-	5	1118	c.1075G>A	c.(1075-1077)GGA>AGA	p.G359R		NM_012089	NP_036221	Q9NRK6	ABCBA_HUMAN	ATP-binding cassette, sub-family B, member 10	359	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)				CTTACATTTCCAATACGTTCC	0.388													12	34	---	---	---	---	PASS
ABCB10	23456	broad.mit.edu	37	1	229685173	229685173	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:229685173C>T	uc001htp.3	-	2	569	c.526G>A	c.(526-528)GGA>AGA	p.G176R		NM_012089	NP_036221	Q9NRK6	ABCBA_HUMAN	ATP-binding cassette, sub-family B, member 10	176	Mitochondrial intermembrane (Potential).|ABC transmembrane type-1.|Helical; (Potential).					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)				GTGAGAAATCCAACCGCAGCT	0.498													4	11	---	---	---	---	PASS
COG2	22796	broad.mit.edu	37	1	230827218	230827218	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:230827218C>T	uc001htw.2	+	17	2174	c.2023C>T	c.(2023-2025)CCC>TCC	p.P675S	COG2_uc001htx.2_Missense_Mutation_p.P674S|COG2_uc010pwc.1_Missense_Mutation_p.P548S	NM_007357	NP_031383	Q14746	COG2_HUMAN	component of oligomeric golgi complex 2 isoform	675					Golgi organization|intra-Golgi vesicle-mediated transport|intracellular protein transport|oligosaccharide biosynthetic process|protein glycosylation	Golgi membrane|Golgi stack|Golgi transport complex	protein binding|protein transporter activity				0	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.178)				AAAAACCACTCCCGCCAACCC	0.498													7	36	---	---	---	---	PASS
C1orf198	84886	broad.mit.edu	37	1	230979646	230979646	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:230979646G>A	uc001hub.2	-						C1orf198_uc009xfh.1_Intron|C1orf198_uc001huc.1_Intron|C1orf198_uc001hud.1_Intron	NM_032800	NP_116189	Q9H425	CA198_HUMAN	hypothetical protein LOC84886 isoform 1												0	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.178)				TCTGACTCTAGGGTGGGACAT	0.567													22	62	---	---	---	---	PASS
TTC13	79573	broad.mit.edu	37	1	231069594	231069594	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:231069594G>A	uc001huf.3	-	9	945	c.914C>T	c.(913-915)TCC>TTC	p.S305F	TTC13_uc009xfi.2_Missense_Mutation_p.S252F|TTC13_uc009xfj.2_RNA|TTC13_uc001hug.3_Missense_Mutation_p.S252F|TTC13_uc009xfk.1_Missense_Mutation_p.S195F	NM_024525	NP_078801	Q8NBP0	TTC13_HUMAN	tetratricopeptide repeat domain 13 isoform a	305	TPR 4.						binding			ovary(1)|skin(1)	2	Breast(184;0.0871)|Ovarian(103;0.183)	Prostate(94;0.167)		COAD - Colon adenocarcinoma(196;0.243)		TTCTTTGAAGGATTCAATAGC	0.289													16	18	---	---	---	---	PASS
C1orf131	128061	broad.mit.edu	37	1	231376759	231376759	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:231376759C>T	uc001hun.1	-						C1orf131_uc001hul.2_Intron|C1orf131_uc001hum.2_Intron|C1orf131_uc010pwd.1_Intron|C1orf131_uc001huo.1_Intron|GNPAT_uc009xfo.1_5'Flank|GNPAT_uc001hup.3_5'Flank|GNPAT_uc009xfp.2_5'Flank	NM_152379	NP_689592	Q8NDD1	CA131_HUMAN	hypothetical protein LOC128061											central_nervous_system(1)|skin(1)	2	Breast(184;0.0871)	all_cancers(173;0.2)|Prostate(94;0.183)				CTCCTGGGACCCCGCACTCAC	0.587													14	68	---	---	---	---	PASS
PCNXL2	80003	broad.mit.edu	37	1	233150490	233150490	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:233150490G>A	uc001hvl.2	-	28	5108	c.4873C>T	c.(4873-4875)CCC>TCC	p.P1625S	PCNXL2_uc001hvk.1_Missense_Mutation_p.P277S|PCNXL2_uc001hvm.1_RNA	NM_014801	NP_055616	A6NKB5	PCX2_HUMAN	pecanex-like 2	1625						integral to membrane				central_nervous_system(1)|pancreas(1)	2		all_cancers(173;0.0347)|Prostate(94;0.137)				GTCACCAAGGGAGAGTCCTCG	0.527													16	28	---	---	---	---	PASS
LYST	1130	broad.mit.edu	37	1	235967923	235967923	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:235967923G>A	uc001hxj.2	-	7	3611	c.3436C>T	c.(3436-3438)CTT>TTT	p.L1146F	LYST_uc009xgb.1_RNA|LYST_uc010pxs.1_RNA|LYST_uc001hxl.1_Missense_Mutation_p.L1146F	NM_000081	NP_000072	Q99698	LYST_HUMAN	lysosomal trafficking regulator	1146					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)			GACTGGGAAAGATGGTCCCTC	0.333									Chediak-Higashi_syndrome				20	39	---	---	---	---	PASS
MTR	4548	broad.mit.edu	37	1	236998841	236998841	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:236998841C>T	uc001hyi.3	+						MTR_uc010pxw.1_Intron|MTR_uc010pxx.1_Intron|MTR_uc010pxy.1_Intron	NM_000254	NP_000245	Q99707	METH_HUMAN	5-methyltetrahydrofolate-homocysteine						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)	CTCATTCTTCCTTCAGGAAGC	0.463													14	47	---	---	---	---	PASS
RYR2	6262	broad.mit.edu	37	1	237540665	237540665	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:237540665G>A	uc001hyl.1	+	8	626	c.506G>A	c.(505-507)CGA>CAA	p.R169Q		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	169	Cytoplasmic (By similarity).				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)			TCTAAGCAGCGATCAGAAGGA	0.418													20	25	---	---	---	---	PASS
RYR2	6262	broad.mit.edu	37	1	237659980	237659980	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:237659980G>A	uc001hyl.1	+	20	2251	c.2131G>A	c.(2131-2133)GAA>AAA	p.E711K		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	711	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)			TGGAGGGGGCGAAGAGTGGGG	0.522													24	52	---	---	---	---	PASS
RYR2	6262	broad.mit.edu	37	1	237777985	237777985	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:237777985G>A	uc001hyl.1	+	37	5677	c.5557G>A	c.(5557-5559)GAA>AAA	p.E1853K		NM_001035	NP_001026	Q92736	RYR2_HUMAN	cardiac muscle ryanodine receptor	1853	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)			TGTGTTTAAAGAAGCTGCCAC	0.517													6	23	---	---	---	---	PASS
CHRM3	1131	broad.mit.edu	37	1	240071961	240071961	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:240071961A>C	uc001hyp.2	+	5	1989	c.1210A>C	c.(1210-1212)AAA>CAA	p.K404Q		NM_000740	NP_000731	P20309	ACM3_HUMAN	cholinergic receptor, muscarinic 3	404	Cytoplasmic (By similarity).				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)	CTTGGAGAGGAAAGCCGACAA	0.577													12	11	---	---	---	---	PASS
FMN2	56776	broad.mit.edu	37	1	240370099	240370099	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:240370099G>A	uc010pyd.1	+	5	2212	c.1987G>A	c.(1987-1989)GAA>AAA	p.E663K	FMN2_uc010pye.1_Missense_Mutation_p.E667K	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	663					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)			CGCCCTTCAGGAAGTTGTTGA	0.393													6	20	---	---	---	---	PASS
FMN2	56776	broad.mit.edu	37	1	240371850	240371850	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:240371850C>T	uc010pyd.1	+	5	3963	c.3738C>T	c.(3736-3738)CTC>CTT	p.L1246L	FMN2_uc010pye.1_Silent_p.L1250L	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1246	Pro-rich.|FH1.				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)			CTCCACTCCTCCCACAAGTTG	0.567													8	26	---	---	---	---	PASS
FMN2	56776	broad.mit.edu	37	1	240371851	240371851	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:240371851C>T	uc010pyd.1	+	5	3964	c.3739C>T	c.(3739-3741)CCA>TCA	p.P1247S	FMN2_uc010pye.1_Missense_Mutation_p.P1251S	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1247	Pro-rich.|FH1.				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)			TCCACTCCTCCCACAAGTTGG	0.562													9	27	---	---	---	---	PASS
FMN2	56776	broad.mit.edu	37	1	240497239	240497239	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:240497239T>A	uc010pyd.1	+	12	4862	c.4637T>A	c.(4636-4638)TTT>TAT	p.F1546Y	FMN2_uc010pye.1_Missense_Mutation_p.F1550Y|FMN2_uc010pyf.1_Missense_Mutation_p.F192Y|FMN2_uc010pyg.1_Missense_Mutation_p.F142Y	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	formin 2	1546	FH2.				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)			CTCCGAAATTTTGATGAGGTA	0.294													7	19	---	---	---	---	PASS
WDR64	128025	broad.mit.edu	37	1	241886653	241886653	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:241886653G>A	uc001hze.1	+	9	1286	c.1079G>A	c.(1078-1080)GGG>GAG	p.G360E	WDR64_uc001hzf.1_Missense_Mutation_p.G80E			B1ANS9	WDR64_HUMAN	RecName: Full=WD repeat-containing protein 64;	360	WD 3.									skin(1)	1	Ovarian(103;0.103)	all_cancers(173;0.0121)	OV - Ovarian serous cystadenocarcinoma(106;0.0116)			AAGCCAGTAGGGAAACTTGTA	0.448													9	34	---	---	---	---	PASS
WDR64	128025	broad.mit.edu	37	1	241953957	241953957	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:241953957G>A	uc001hzf.1	+	14	1738	c.1585G>A	c.(1585-1587)GAA>AAA	p.E529K	WDR64_uc001hzg.1_Missense_Mutation_p.E442K	NM_144625	NP_653226	B1ANS9	WDR64_HUMAN	WD repeat domain 64	976										skin(1)	1	Ovarian(103;0.103)	all_cancers(173;0.0121)	OV - Ovarian serous cystadenocarcinoma(106;0.0116)			CTTTGAAGTGGAACAGGATTT	0.348													13	72	---	---	---	---	PASS
EXO1	9156	broad.mit.edu	37	1	242042543	242042543	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:242042543A>C	uc001hzh.2	+	13	2547	c.2007A>C	c.(2005-2007)GAA>GAC	p.E669D	EXO1_uc001hzi.2_Missense_Mutation_p.E669D|EXO1_uc001hzj.2_Missense_Mutation_p.E669D|EXO1_uc009xgq.2_Missense_Mutation_p.E668D	NM_130398	NP_569082	Q9UQ84	EXO1_HUMAN	exonuclease 1 isoform b	669	Interaction with MSH2.				meiosis|mismatch repair	nucleus	double-stranded DNA specific 5'-3' exodeoxyribonuclease activity|flap endonuclease activity|metal ion binding|protein binding|protein binding|ribonuclease H activity|single-stranded DNA specific 5'-3' exodeoxyribonuclease activity			ovary(2)|lung(2)|skin(1)	5	Ovarian(103;0.103)	all_cancers(173;0.0555)	OV - Ovarian serous cystadenocarcinoma(106;0.0107)			CCTTACGAGAAGAGGCATGTT	0.468								Direct_reversal_of_damage|Editing_and_processing_nucleases					20	38	---	---	---	---	PASS
PLD5	200150	broad.mit.edu	37	1	242253243	242253243	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:242253243C>T	uc001hzn.1	-	10	1651	c.1524G>A	c.(1522-1524)CCG>CCA	p.P508P	PLD5_uc001hzl.3_Silent_p.P446P|PLD5_uc001hzm.3_Silent_p.P298P|PLD5_uc001hzo.1_Silent_p.P416P			Q8N7P1	PLD5_HUMAN	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;	508						integral to membrane	catalytic activity			ovary(6)	6	Melanoma(84;0.242)		OV - Ovarian serous cystadenocarcinoma(106;0.0329)			TTGAGCAGTTCGGCTGTTTGG	0.453													30	78	---	---	---	---	PASS
AKT3	10000	broad.mit.edu	37	1	243708911	243708911	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:243708911G>A	uc001iab.1	-						AKT3_uc001hzz.1_Intron	NM_005465	NP_005456	Q9Y243	AKT3_HUMAN	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)			TATGAGAACAGAAATAAAATT	0.313													4	18	---	---	---	---	PASS
AKT3	10000	broad.mit.edu	37	1	243809233	243809233	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:243809233C>T	uc001iab.1	-	4	472	c.391G>A	c.(391-393)GAA>AAA	p.E131K	AKT3_uc001hzz.1_Missense_Mutation_p.E131K	NM_005465	NP_005456	Q9Y243	AKT3_HUMAN	AKT3 kinase isoform 1	131					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)			TCCATCTCTTCCTCTCCTATA	0.388													10	19	---	---	---	---	PASS
SCCPDH	51097	broad.mit.edu	37	1	246922380	246922380	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:246922380C>T	uc001ibr.2	+	7	1087	c.740C>T	c.(739-741)CCT>CTT	p.P247L		NM_016002	NP_057086	Q8NBX0	SCPDH_HUMAN	saccharopine dehydrogenase (putative)	247						midbody	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity			ovary(1)	1	all_cancers(71;6.8e-05)|all_epithelial(71;7.93e-06)|Ovarian(71;0.0173)|Breast(184;0.0318)|all_lung(81;0.0545)|Lung NSC(105;0.0618)	all_cancers(173;0.0343)	OV - Ovarian serous cystadenocarcinoma(106;0.00323)	GBM - Glioblastoma multiforme(49;0.0896)		TATTCCATTCCTTTTATGGGA	0.363													26	71	---	---	---	---	PASS
ZNF669	79862	broad.mit.edu	37	1	247264612	247264612	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:247264612G>A	uc001ice.2	-	4	632	c.459C>T	c.(457-459)ATC>ATT	p.I153I	ZNF669_uc001icf.2_Silent_p.I67I	NM_024804	NP_079080	Q96BR6	ZN669_HUMAN	zinc finger protein 669 isoform 1	153	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(71;4.09e-05)|all_epithelial(71;6.72e-06)|Breast(184;0.0226)|Ovarian(71;0.0283)|all_lung(81;0.0488)|Lung NSC(105;0.053)		OV - Ovarian serous cystadenocarcinoma(106;0.00427)			GTCTCTGTACGATATGATTTC	0.328													25	36	---	---	---	---	PASS
NLRP3	114548	broad.mit.edu	37	1	247588388	247588388	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:247588388G>A	uc001icr.2	+	5	1781	c.1643G>A	c.(1642-1644)GGG>GAG	p.G548E	NLRP3_uc001ics.2_Missense_Mutation_p.G548E|NLRP3_uc001icu.2_Missense_Mutation_p.G548E|NLRP3_uc001icw.2_Missense_Mutation_p.G548E|NLRP3_uc001icv.2_Missense_Mutation_p.G548E|NLRP3_uc010pyw.1_Missense_Mutation_p.G546E|NLRP3_uc001ict.1_Missense_Mutation_p.G546E	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a	548					detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding			lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			AACGTTCCAGGGAGTCGTTTG	0.463													3	17	---	---	---	---	PASS
NLRP3	114548	broad.mit.edu	37	1	247607969	247607969	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:247607969C>T	uc001icr.2	+	10	2995	c.2857C>T	c.(2857-2859)CTC>TTC	p.L953F	NLRP3_uc001ics.2_Missense_Mutation_p.L896F|NLRP3_uc001icu.2_Missense_Mutation_p.L953F|NLRP3_uc001icw.2_Missense_Mutation_p.L896F|NLRP3_uc001icv.2_Missense_Mutation_p.L839F|NLRP3_uc010pyw.1_Missense_Mutation_p.L931F	NM_001079821	NP_001073289	Q96P20	NALP3_HUMAN	NLR family, pyrin domain containing 3 isoform a	953	LRR 8.				detection of biotic stimulus|induction of apoptosis|inflammatory response|negative regulation of NF-kappaB import into nucleus|negative regulation of NF-kappaB transcription factor activity|positive regulation of interleukin-1 beta secretion|protein oligomerization|signal transduction	cytoplasm	ATP binding|peptidoglycan binding|protein binding			lung(8)|skin(8)|ovary(7)|upper_aerodigestive_tract(1)|breast(1)|pancreas(1)	26	all_cancers(71;9.66e-05)|all_epithelial(71;1.85e-05)|Breast(184;0.0226)|Ovarian(71;0.0377)|all_lung(81;0.0662)|Lung NSC(105;0.0724)	all_cancers(173;0.0172)	OV - Ovarian serous cystadenocarcinoma(106;0.0141)			CAACTGCAACCTCACGTCACA	0.522													8	16	---	---	---	---	PASS
OR2G2	81470	broad.mit.edu	37	1	247752441	247752441	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:247752441C>T	uc010pyy.1	+	1	780	c.780C>T	c.(778-780)TTC>TTT	p.F260F		NM_001001915	NP_001001915	Q8NGZ5	OR2G2_HUMAN	olfactory receptor, family 2, subfamily G,	260	Helical; Name=6; (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)			ccatcatcttcatgtatctgc	0.373													45	61	---	---	---	---	PASS
OR1C1	26188	broad.mit.edu	37	1	247920818	247920818	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:247920818C>T	uc010pza.1	-	1	891	c.891G>A	c.(889-891)ATG>ATA	p.M297I		NM_012353	NP_036485	Q15619	OR1C1_HUMAN	olfactory receptor, family 1, subfamily C,	297	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;4.34e-05)|all_epithelial(71;1.13e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)	all_cancers(173;0.0247)	OV - Ovarian serous cystadenocarcinoma(106;0.0168)			GTCCCCTCTTCATATCCCTGT	0.428													19	57	---	---	---	---	PASS
OR1C1	26188	broad.mit.edu	37	1	247921615	247921615	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:247921615G>A	uc010pza.1	-	1	94	c.94C>T	c.(94-96)CTC>TTC	p.L32F		NM_012353	NP_036485	Q15619	OR1C1_HUMAN	olfactory receptor, family 1, subfamily C,	32	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	all_cancers(71;4.34e-05)|all_epithelial(71;1.13e-05)|Breast(184;0.0149)|Ovarian(71;0.0377)|all_lung(81;0.0786)|Lung NSC(105;0.0858)	all_cancers(173;0.0247)	OV - Ovarian serous cystadenocarcinoma(106;0.0168)			TACATACAGAGAAAGAGCACA	0.463													5	26	---	---	---	---	PASS
OR14A16	284532	broad.mit.edu	37	1	247978121	247978121	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:247978121C>T	uc001idm.1	-	1	911	c.911G>A	c.(910-912)GGA>GAA	p.G304E		NM_001001966	NP_001001966	Q8NHC5	O14AG_HUMAN	olfactory receptor, family 14, subfamily A,	304	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GGTGAGCTTTCCCTTTATCAA	0.343													6	15	---	---	---	---	PASS
OR14A16	284532	broad.mit.edu	37	1	247978721	247978721	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:247978721G>A	uc001idm.1	-	1	311	c.311C>T	c.(310-312)TCT>TTT	p.S104F		NM_001001966	NP_001001966	Q8NHC5	O14AG_HUMAN	olfactory receptor, family 14, subfamily A,	104	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AGATGCTGAAGAAAGCAACAA	0.463													39	44	---	---	---	---	PASS
OR2W3	343171	broad.mit.edu	37	1	248058951	248058951	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248058951C>T	uc001idp.1	+	3	332	c.63C>T	c.(61-63)CCC>CCT	p.P21P	OR2W3_uc010pzb.1_Silent_p.P21P	NM_001001957	NP_001001957	Q7Z3T1	OR2W3_HUMAN	olfactory receptor, family 2, subfamily W,	21	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|pancreas(1)	3	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)		OV - Ovarian serous cystadenocarcinoma(106;0.0319)			CTGACCGACCCCATCTGGAGA	0.527													21	36	---	---	---	---	PASS
OR2L8	391190	broad.mit.edu	37	1	248112162	248112162	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248112162G>A	uc001idt.1	+	1	3	c.3G>A	c.(1-3)ATG>ATA	p.M1I	OR2L13_uc001ids.2_Intron	NM_001001963	NP_001001963	Q8NGY9	OR2L8_HUMAN	olfactory receptor, family 2, subfamily L,	1	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	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)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			AATGCTCCATGGAAAATTACA	0.279													7	35	---	---	---	---	PASS
OR2L8	391190	broad.mit.edu	37	1	248112240	248112240	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248112240C>T	uc001idt.1	+	1	81	c.81C>T	c.(79-81)TTC>TTT	p.F27F	OR2L13_uc001ids.2_Intron	NM_001001963	NP_001001963	Q8NGY9	OR2L8_HUMAN	olfactory receptor, family 2, subfamily L,	27	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	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)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			TTTTCTTCTTCATTCTCATTG	0.388													33	78	---	---	---	---	PASS
OR2L8	391190	broad.mit.edu	37	1	248112840	248112840	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248112840G>A	uc001idt.1	+	1	681	c.681G>A	c.(679-681)ATG>ATA	p.M227I	OR2L13_uc001ids.2_Intron	NM_001001963	NP_001001963	Q8NGY9	OR2L8_HUMAN	olfactory receptor, family 2, subfamily L,	227	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	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)		OV - Ovarian serous cystadenocarcinoma(106;0.0152)			TCTACCACATGAAATCTGCAG	0.448													23	66	---	---	---	---	PASS
OR2L2	26246	broad.mit.edu	37	1	248202092	248202092	+	Missense_Mutation	SNP	C	T	T	rs140243044		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248202092C>T	uc001idw.2	+	1	619	c.523C>T	c.(523-525)CAT>TAT	p.H175Y	OR2L13_uc001ids.2_Intron	NM_001004686	NP_001004686	Q8NH16	OR2L2_HUMAN	olfactory receptor, family 2, subfamily L,	175	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	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;0.0278)			AGCCATCAATCATTTTTTCTG	0.433													20	93	---	---	---	---	PASS
OR2L3	391192	broad.mit.edu	37	1	248224130	248224130	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248224130C>T	uc001idx.1	+	1	147	c.147C>T	c.(145-147)TTC>TTT	p.F49F	OR2L13_uc001ids.2_Intron	NM_001004687	NP_001004687	Q8NG85	OR2L3_HUMAN	olfactory receptor, family 2, subfamily L,	49	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	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;0.0278)			TTCTCATCTTCTTGGACACCC	0.418													47	155	---	---	---	---	PASS
OR2L3	391192	broad.mit.edu	37	1	248224427	248224427	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248224427G>A	uc001idx.1	+	1	444	c.444G>A	c.(442-444)TGG>TGA	p.W148*	OR2L13_uc001ids.2_Intron	NM_001004687	NP_001004687	Q8NG85	OR2L3_HUMAN	olfactory receptor, family 2, subfamily L,	148	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	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;0.0278)			CAGGGTCTTGGATCATAGGCT	0.433													44	106	---	---	---	---	PASS
OR2L13	284521	broad.mit.edu	37	1	248263533	248263533	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248263533C>T	uc001ids.2	+	3	1193	c.856C>T	c.(856-858)CCC>TCC	p.P286S		NM_175911	NP_787107	Q8N349	OR2LD_HUMAN	olfactory receptor, family 2, subfamily L,	286	Helical; Name=7; (Potential).				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)			CATGCTCAATCCCATTATCTA	0.488													24	38	---	---	---	---	PASS
OR2M2	391194	broad.mit.edu	37	1	248343802	248343802	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248343802G>A	uc010pzf.1	+	1	515	c.515G>A	c.(514-516)CGG>CAG	p.R172Q		NM_001004688	NP_001004688	Q96R28	OR2M2_HUMAN	olfactory receptor, family 2, subfamily M,	172	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|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;0.0245)			TGTGGGTCTCGGGAAATAGCC	0.418													59	94	---	---	---	---	PASS
OR2M3	127062	broad.mit.edu	37	1	248366433	248366433	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248366433C>T	uc010pzg.1	+	1	64	c.64C>T	c.(64-66)CCC>TCC	p.P22S		NM_001004689	NP_001004689	Q8NG83	OR2M3_HUMAN	olfactory receptor, family 2, subfamily M,	22	Extracellular (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)			CAATCACAGCCCCACCCACAC	0.498													61	86	---	---	---	---	PASS
OR2T33	391195	broad.mit.edu	37	1	248436733	248436733	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248436733G>A	uc010pzi.1	-	1	384	c.384C>T	c.(382-384)CTC>CTT	p.L128L		NM_001004695	NP_001004695	Q8NG76	O2T33_HUMAN	olfactory receptor, family 2, subfamily T,	128	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000124)|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;0.0245)			TGGGATATCGGAGTGGGTGGC	0.597													9	75	---	---	---	---	PASS
OR2T33	391195	broad.mit.edu	37	1	248436828	248436828	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248436828C>T	uc010pzi.1	-	1	289	c.289G>A	c.(289-291)GTG>ATG	p.V97M		NM_001004695	NP_001004695	Q8NG76	O2T33_HUMAN	olfactory receptor, family 2, subfamily T,	97	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000124)|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;0.0245)			AAGATCTGCACACCACAGCCA	0.572													8	111	---	---	---	---	PASS
OR2T33	391195	broad.mit.edu	37	1	248437113	248437113	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248437113C>T	uc010pzi.1	-	1	4	c.4G>A	c.(4-6)GAG>AAG	p.E2K		NM_001004695	NP_001004695	Q8NG76	O2T33_HUMAN	olfactory receptor, family 2, subfamily T,	2	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2	all_cancers(71;0.000124)|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;0.0245)			TTTCTCATCTCCATAATTTCC	0.428													19	25	---	---	---	---	PASS
OR2T12	127064	broad.mit.edu	37	1	248458687	248458687	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248458687G>A	uc010pzj.1	-	1	194	c.194C>T	c.(193-195)TCC>TTC	p.S65F		NM_001004692	NP_001004692	Q8NG77	O2T12_HUMAN	olfactory receptor, family 2, subfamily T,	65	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)		OV - Ovarian serous cystadenocarcinoma(106;0.0201)			GTCCATGAGGGAAAGTTGGCT	0.552													37	23	---	---	---	---	PASS
OR2M7	391196	broad.mit.edu	37	1	248486965	248486965	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248486965C>T	uc010pzk.1	-	1	906	c.906G>A	c.(904-906)ATG>ATA	p.M302I		NM_001004691	NP_001004691	Q8NG81	OR2M7_HUMAN	olfactory receptor, family 2, subfamily M,	302	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	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)			CTAAGATTTTCATTAATGCTC	0.403													23	37	---	---	---	---	PASS
OR14C36	127066	broad.mit.edu	37	1	248512233	248512233	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248512233C>T	uc010pzl.1	+	1	157	c.157C>T	c.(157-159)CTT>TTT	p.L53F		NM_001001918	NP_001001918	Q8NHC7	O14CZ_HUMAN	olfactory receptor, family 14, subfamily C,	53	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3						TGACAGCAGCCTTCACATGCC	0.438													28	79	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	1	248513021	248513021	+	IGR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248513021C>T								OR14C36 (8 upstream) : OR2T4 (11862 downstream)																							TGTAAGAAACCCGAGAGGCTC	0.299													19	28	---	---	---	---	PASS
OR2T4	127074	broad.mit.edu	37	1	248525368	248525368	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248525368C>T	uc001ieh.1	+	1	486	c.486C>T	c.(484-486)CTC>CTT	p.L162L		NM_001004696	NP_001004696	Q8NH00	OR2T4_HUMAN	olfactory receptor, family 2, subfamily T,	162	Cytoplasmic (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)			GCCATCCTCTCCGTTACCCTG	0.527													45	110	---	---	---	---	PASS
OR2T2	401992	broad.mit.edu	37	1	248616386	248616386	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248616386G>A	uc001iek.1	+	1	288	c.288G>A	c.(286-288)CTG>CTA	p.L96L		NM_001004136	NP_001004136	Q6IF00	OR2T2_HUMAN	olfactory receptor, family 2, subfamily T,	96	Extracellular (Potential).				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)			TTTCCTTCCTGGGCTGTGCAG	0.532													21	176	---	---	---	---	PASS
OR2G6	391211	broad.mit.edu	37	1	248685273	248685273	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248685273C>T	uc001ien.1	+	1	326	c.326C>T	c.(325-327)TCG>TTG	p.S109L		NM_001013355	NP_001013373	Q5TZ20	OR2G6_HUMAN	olfactory receptor, family 2, subfamily G,	109	Helical; Name=3; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	all_cancers(71;0.000108)|all_epithelial(71;1.03e-05)|Breast(184;0.00909)|Ovarian(71;0.0377)|all_lung(81;0.127)|Lung NSC(105;0.136)	all_cancers(173;0.0156)	OV - Ovarian serous cystadenocarcinoma(106;0.0265)			GGGTTGGGCTCGTCTGAGTGT	0.547													15	49	---	---	---	---	PASS
OR2T11	127077	broad.mit.edu	37	1	248789647	248789647	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248789647G>A	uc001ier.1	-	1	783	c.783C>T	c.(781-783)TCC>TCT	p.S261S		NM_001001964	NP_001001964	Q8NH01	O2T11_HUMAN	olfactory receptor, family 2, subfamily T,	261	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			lung(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)			GGGTGTGGAAGGACTGGGGCA	0.512													17	7	---	---	---	---	PASS
OR2T11	127077	broad.mit.edu	37	1	248789953	248789953	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:248789953G>A	uc001ier.1	-	1	477	c.477C>T	c.(475-477)ATC>ATT	p.I159I		NM_001001964	NP_001001964	Q8NH01	O2T11_HUMAN	olfactory receptor, family 2, subfamily T,	159	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			lung(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)			CATTCATGGTGATGGGAGTGA	0.522													23	4	---	---	---	---	PASS
PXDN	7837	broad.mit.edu	37	2	1648443	1648443	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:1648443G>A	uc002qxa.2	-	18	3754	c.3690C>T	c.(3688-3690)CCC>CCT	p.P1230P		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	1230					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)		ACATCAGGGTGGGGCCCAGCC	0.572													16	26	---	---	---	---	PASS
PXDN	7837	broad.mit.edu	37	2	1652238	1652238	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:1652238G>A	uc002qxa.2	-	17	3378	c.3314C>T	c.(3313-3315)CCC>CTC	p.P1105L		NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	1105					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)		AATCCGGAAGGGAGAGAAGAA	0.582													13	14	---	---	---	---	PASS
PXDN	7837	broad.mit.edu	37	2	1677562	1677562	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:1677562C>T	uc002qxa.2	-	9	935	c.871G>A	c.(871-873)GAT>AAT	p.D291N	PXDN_uc002qxb.1_Missense_Mutation_p.D291N|PXDN_uc002qxc.1_Missense_Mutation_p.D108N	NM_012293	NP_036425	Q92626	PXDN_HUMAN	peroxidasin precursor	291	Ig-like C2-type 1.				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)		AGGCGGGAATCTGTCTTCATG	0.507													26	68	---	---	---	---	PASS
MYT1L	23040	broad.mit.edu	37	2	1891377	1891377	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:1891377T>C	uc002qxe.2	-	17	3352	c.2525A>G	c.(2524-2526)GAA>GGA	p.E842G	MYT1L_uc002qxd.2_Missense_Mutation_p.E840G|MYT1L_uc010ewl.1_RNA	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	842					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)		GTCCAAGTCTTCTGGCTGTGG	0.562													48	105	---	---	---	---	PASS
MYT1L	23040	broad.mit.edu	37	2	1906880	1906880	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:1906880C>T	uc002qxe.2	-	14	2831	c.2004G>A	c.(2002-2004)AGG>AGA	p.R668R	MYT1L_uc002qxd.2_Silent_p.R666R|MYT1L_uc010ewl.1_Intron	NM_015025	NP_055840	Q9UL68	MYT1L_HUMAN	myelin transcription factor 1-like	668					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)		GGGATATATCCCTGGTTTGCA	0.438													25	40	---	---	---	---	PASS
ALLC	55821	broad.mit.edu	37	2	3744989	3744989	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:3744989C>T	uc010ewt.2	+	10	954	c.793C>T	c.(793-795)CGA>TGA	p.R265*	ALLC_uc002qyf.2_Nonsense_Mutation_p.R36*	NM_018436	NP_060906	Q8N6M5	ALLC_HUMAN	allantoicase isoform a	284							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)		GGCAGTTTTCCGATTGGCACA	0.373										HNSCC(21;0.051)			26	74	---	---	---	---	PASS
RNF144A	9781	broad.mit.edu	37	2	7160794	7160794	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:7160794C>T	uc002qys.2	+	6	934	c.492C>T	c.(490-492)TTC>TTT	p.F164F	RNF144A_uc002qyt.2_5'UTR	NM_014746	NP_055561	P50876	R144A_HUMAN	ring finger protein 144	164						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)		CGATCACCTTCCTCCCCGGGG	0.592													11	25	---	---	---	---	PASS
KIDINS220	57498	broad.mit.edu	37	2	8890323	8890323	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:8890323G>A	uc002qzc.2	-	24	3515	c.3333C>T	c.(3331-3333)TTC>TTT	p.F1111F	KIDINS220_uc010yiv.1_Silent_p.F877F|KIDINS220_uc002qzd.2_Silent_p.F1069F|KIDINS220_uc010yiw.1_Silent_p.F1112F|KIDINS220_uc002qzb.2_5'UTR|KIDINS220_uc002qze.2_Silent_p.F116F	NM_020738	NP_065789	Q9ULH0	KDIS_HUMAN	kinase D-interacting substrate of 220 kDa	1111	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)					CTCCACCTGCGAAGGGCCCAT	0.612													26	49	---	---	---	---	PASS
NBAS	51594	broad.mit.edu	37	2	15415806	15415806	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:15415806G>A	uc002rcc.1	-	44	5552	c.5526C>T	c.(5524-5526)TCC>TCT	p.S1842S	NBAS_uc010exl.1_Silent_p.S914S|NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	1842										ovary(2)|liver(1)|skin(1)	4						GAGAGCTTGGGGAAAGCATCT	0.453													27	31	---	---	---	---	PASS
NBAS	51594	broad.mit.edu	37	2	15679377	15679377	+	Silent	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:15679377G>T	uc002rcc.1	-	7	509	c.483C>A	c.(481-483)CTC>CTA	p.L161L	NBAS_uc002rcd.1_RNA	NM_015909	NP_056993	A2RRP1	NBAS_HUMAN	neuroblastoma-amplified protein	161	WD 1.									ovary(2)|liver(1)|skin(1)	4						CACTTCCCATGAGATCAAACA	0.428													16	52	---	---	---	---	PASS
MYCN	4613	broad.mit.edu	37	2	16082519	16082519	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:16082519C>T	uc002rci.2	+	2	633	c.333C>T	c.(331-333)ATC>ATT	p.I111I	MYCNOS_uc002rch.1_5'Flank|MYCN_uc010yjr.1_Silent_p.I103I	NM_005378	NP_005369	P04198	MYCN_HUMAN	v-myc myelocytomatosis viral related oncogene,	111					regulation of transcription from RNA polymerase II promoter	chromatin|nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	5	all_cancers(1;1.35e-08)|all_neural(1;2.92e-24)|Lung SC(1;3.26e-07)|Medulloblastoma(1;6.9e-06)|all_lung(1;1.26e-05)|Glioma(3;0.135)|Acute lymphoblastic leukemia(172;0.155)|all_epithelial(1;0.169)|all_hematologic(175;0.197)		GBM - Glioblastoma multiforme(3;0.000332)			ACCCGGTCATCCTCCAGGACT	0.706			A		neuroblastoma								6	4	---	---	---	---	PASS
RAD51AP2	729475	broad.mit.edu	37	2	17698866	17698866	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:17698866C>T	uc002rcl.1	-	1	841	c.817G>A	c.(817-819)GTC>ATC	p.V273I	RAD51AP2_uc010exn.1_Missense_Mutation_p.V264I	NM_001099218	NP_001092688	Q09MP3	R51A2_HUMAN	RAD51 associated protein 2	273										ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.158)					TTTAAATAGACAGAGGACATT	0.378													14	40	---	---	---	---	PASS
SDC1	6382	broad.mit.edu	37	2	20403882	20403882	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:20403882G>A	uc002rdo.1	-	3	618	c.319C>T	c.(319-321)CTG>TTG	p.L107L	SDC1_uc002rdp.1_Silent_p.L107L|SDC1_uc010exv.2_Silent_p.L107L|SDC1_uc010exw.1_RNA	NM_002997	NP_002988	P18827	SDC1_HUMAN	syndecan 1 precursor	107	Extracellular (Potential).				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)		ACTTCTGGCAGGACTACAGCC	0.677													20	26	---	---	---	---	PASS
SDC1	6382	broad.mit.edu	37	2	20403883	20403883	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:20403883G>A	uc002rdo.1	-	3	617	c.318C>T	c.(316-318)GTC>GTT	p.V106V	SDC1_uc002rdp.1_Silent_p.V106V|SDC1_uc010exv.2_Silent_p.V106V|SDC1_uc010exw.1_RNA	NM_002997	NP_002988	P18827	SDC1_HUMAN	syndecan 1 precursor	106	Extracellular (Potential).				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)		CTTCTGGCAGGACTACAGCCT	0.677													20	27	---	---	---	---	PASS
APOB	338	broad.mit.edu	37	2	21225418	21225418	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:21225418G>A	uc002red.2	-	29	13004	c.12876C>T	c.(12874-12876)ACC>ACT	p.T4292T		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	4292					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	GCACCTCTGTGGTCTTGAGAG	0.328													26	78	---	---	---	---	PASS
APOB	338	broad.mit.edu	37	2	21232203	21232203	+	Nonsense_Mutation	SNP	G	A	A	rs146538280		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:21232203G>A	uc002red.2	-	26	7665	c.7537C>T	c.(7537-7539)CGA>TGA	p.R2513*		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	2513					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity	p.R2513*(1)		ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	AGGGTCTCTCGGAATTTGGCC	0.438													23	32	---	---	---	---	PASS
APOB	338	broad.mit.edu	37	2	21232524	21232524	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:21232524C>A	uc002red.2	-	26	7344	c.7216G>T	c.(7216-7218)GAA>TAA	p.E2406*		NM_000384	NP_000375	P04114	APOB_HUMAN	apolipoprotein B precursor	2406					cholesterol homeostasis|cholesterol metabolic process|leukocyte migration|low-density lipoprotein particle clearance|low-density lipoprotein particle remodeling|platelet activation|positive regulation of cholesterol storage|positive regulation of macrophage derived foam cell differentiation|receptor-mediated endocytosis|response to virus	chylomicron remnant|clathrin-coated endocytic vesicle membrane|endoplasmic reticulum lumen|endoplasmic reticulum membrane|endosome lumen|endosome membrane|intermediate-density lipoprotein particle|low-density lipoprotein particle|mature chylomicron|microsome|plasma membrane|very-low-density lipoprotein particle	cholesterol transporter activity|enzyme binding|heparin binding|low-density lipoprotein particle receptor binding|phospholipid binding|protein heterodimerization activity			ovary(11)|skin(9)|central_nervous_system(3)|large_intestine(2)|upper_aerodigestive_tract(1)|pancreas(1)	27	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Atorvastatin(DB01076)	AAAGATAATTCATTAAGCTTC	0.294													8	25	---	---	---	---	PASS
ATAD2B	54454	broad.mit.edu	37	2	24011440	24011440	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:24011440A>T	uc002rek.3	-	20	3012	c.2718T>A	c.(2716-2718)TTT>TTA	p.F906L	ATAD2B_uc010yki.1_RNA|ATAD2B_uc002rei.3_Missense_Mutation_p.F151L|ATAD2B_uc002rej.3_Missense_Mutation_p.F74L	NM_017552	NP_060022	Q9ULI0	ATD2B_HUMAN	ATPase family, AAA domain containing 2B	906							ATP binding|nucleoside-triphosphatase activity			central_nervous_system(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					ATTCTTGAAAAAATTTTCTTC	0.363													16	30	---	---	---	---	PASS
ITSN2	50618	broad.mit.edu	37	2	24432886	24432886	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:24432886G>A	uc002rfe.2	-	35	4532	c.4274C>T	c.(4273-4275)TCT>TTT	p.S1425F	ITSN2_uc002rff.2_Missense_Mutation_p.S1398F	NM_006277	NP_006268	Q9NZM3	ITSN2_HUMAN	intersectin 2 isoform 1	1425					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)					GTTGGTGAGAGAGTTGAAAAT	0.483													47	57	---	---	---	---	PASS
POMC	5443	broad.mit.edu	37	2	25387536	25387536	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:25387536C>T	uc002rfy.1	-	3	369	c.106G>A	c.(106-108)GAC>AAC	p.D36N	POMC_uc002rfz.1_Missense_Mutation_p.D36N|POMC_uc002rga.1_Missense_Mutation_p.D36N	NM_001035256	NP_001030333	P01189	COLI_HUMAN	proopiomelanocortin preproprotein	36					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)	GTGGTGAGGTCCTGACACTGG	0.592													23	55	---	---	---	---	PASS
HADHA	3030	broad.mit.edu	37	2	26459867	26459867	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:26459867G>A	uc002rgy.2	-						HADHA_uc010yks.1_Intron|HADHA_uc010ykt.1_Intron	NM_000182	NP_000173	P40939	ECHA_HUMAN	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)	CTGCCAAAGGGAAATATATAC	0.363													16	28	---	---	---	---	PASS
OTOF	9381	broad.mit.edu	37	2	26706345	26706345	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:26706345G>A	uc002rhk.2	-	13	1504	c.1377C>T	c.(1375-1377)TTC>TTT	p.F459F		NM_194248	NP_919224	Q9HC10	OTOF_HUMAN	otoferlin isoform a	459	Cytoplasmic (Potential).|C2 2.				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)					GGCCAGCAAAGAAGACTTGCA	0.577													21	39	---	---	---	---	PASS
CIB4	130106	broad.mit.edu	37	2	26864147	26864147	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:26864147C>T	uc002rhm.2	-	1	65	c.36G>A	c.(34-36)GAG>GAA	p.E12E		NM_001029881	NP_001025052	A0PJX0	CIB4_HUMAN	calcium and integrin binding family member 4	12							calcium ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					CTTCCAGGTCCTCCCAGTGCA	0.552													40	80	---	---	---	---	PASS
DPYSL5	56896	broad.mit.edu	37	2	27156166	27156166	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:27156166C>T	uc002rhu.3	+	7	913	c.755C>T	c.(754-756)TCG>TTG	p.S252L	DPYSL5_uc002rhv.3_Missense_Mutation_p.S252L	NM_020134	NP_064519	Q9BPU6	DPYL5_HUMAN	dihydropyrimidinase-like 5	252					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)					TCCAGTATCTCGGCTGGTGAC	0.517													9	30	---	---	---	---	PASS
ABHD1	84696	broad.mit.edu	37	2	27351984	27351984	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:27351984G>A	uc002rit.2	+	3	607	c.447G>A	c.(445-447)AGG>AGA	p.R149R	ABHD1_uc002riu.2_RNA|ABHD1_uc002riv.2_RNA	NM_032604	NP_115993	Q96SE0	ABHD1_HUMAN	abhydrolase domain-containing protein 1	149						integral to membrane	carboxylesterase activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					AAGCTCTGAGGGATGGCTACC	0.517													11	29	---	---	---	---	PASS
SLC5A6	8884	broad.mit.edu	37	2	27430445	27430445	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:27430445G>A	uc002rjd.2	-	3	465	c.74C>T	c.(73-75)TCC>TTC	p.S25F	SLC5A6_uc010eyv.1_Missense_Mutation_p.S25F|SLC5A6_uc002rje.1_Missense_Mutation_p.S25F	NM_021095	NP_066918	Q9Y289	SC5A6_HUMAN	solute carrier family 5 (sodium-dependent	25	Helical; (Potential).				biotin metabolic process|pantothenate metabolic process	integral to plasma membrane|membrane fraction	sodium-dependent multivitamin transmembrane transporter activity			ovary(2)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				Biotin(DB00121)|Lipoic Acid(DB00166)	GTCCATGATGGAGAAGGTAGA	0.567													10	25	---	---	---	---	PASS
CAD	790	broad.mit.edu	37	2	27446793	27446793	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:27446793T>C	uc002rji.2	+	8	1166	c.1004T>C	c.(1003-1005)TTT>TCT	p.F335S	CAD_uc010eyw.2_Missense_Mutation_p.F335S	NM_004341	NP_004332	P27708	PYR1_HUMAN	carbamoylphosphate synthetase 2/aspartate	335	Glutamine amidotransferase type-1.|GATase (Glutamine amidotransferase).				'de novo' pyrimidine base biosynthetic process|drug metabolic process|glutamine metabolic process|peptidyl-threonine phosphorylation|protein autophosphorylation|pyrimidine nucleoside biosynthetic process|pyrimidine nucleotide biosynthetic process	cytosol|neuronal cell body|nuclear matrix|terminal button	aspartate binding|aspartate carbamoyltransferase activity|ATP binding|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity|dihydroorotase activity|enzyme binding|identical protein binding|metal ion binding|protein kinase activity			ovary(4)|large_intestine(2)|kidney(2)|lung(1)|pancreas(1)	10	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)				L-Aspartic Acid(DB00128)|L-Glutamine(DB00130)	AGTGTCCAGTTTCACCCAGAG	0.537													66	138	---	---	---	---	PASS
DNAJC5G	285126	broad.mit.edu	37	2	27499703	27499703	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:27499703C>T	uc002rjl.1	+	3	525	c.107C>T	c.(106-108)TCC>TTC	p.S36F	SLC30A3_uc010ylh.1_5'Flank|DNAJC5G_uc010yli.1_Missense_Mutation_p.S36F|DNAJC5G_uc002rjm.1_Missense_Mutation_p.S36F	NM_173650	NP_775921	Q8N7S2	DNJ5G_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 5	36	J.				protein folding	membrane	heat shock protein binding|unfolded protein binding			skin(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TTCAAAAAATCCTACAGGTTC	0.423													12	21	---	---	---	---	PASS
GTF3C2	2976	broad.mit.edu	37	2	27551474	27551474	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:27551474G>A	uc002rjv.1	-						MPV17_uc002rjt.2_5'Flank|GTF3C2_uc010eyy.1_Intron|GTF3C2_uc002rju.1_Intron|GTF3C2_uc002rjw.1_Intron	NM_001521	NP_001512	Q8WUA4	TF3C2_HUMAN	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)					CTAATAGAAAGAGACAGATTT	0.413													13	42	---	---	---	---	PASS
GTF3C2	2976	broad.mit.edu	37	2	27566409	27566409	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:27566409C>A	uc002rjv.1	-	3	376	c.13G>T	c.(13-15)GGG>TGG	p.G5W	GTF3C2_uc002rju.1_Missense_Mutation_p.G16W|GTF3C2_uc002rjw.1_Missense_Mutation_p.G5W|GTF3C2_uc010eyz.1_Missense_Mutation_p.G5W	NM_001521	NP_001512	Q8WUA4	TF3C2_HUMAN	general transcription factor IIIC, polypeptide	5						transcription factor TFIIIC complex				ovary(1)|skin(1)	2	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TAGCCGACCCCGCAGGTATCC	0.517													4	60	---	---	---	---	PASS
PLB1	151056	broad.mit.edu	37	2	28802539	28802539	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:28802539G>A	uc002rmb.1	+	23	1531	c.1531G>A	c.(1531-1533)GGC>AGC	p.G511S	PLB1_uc010ezj.1_Missense_Mutation_p.G522S|PLB1_uc002rmc.2_Missense_Mutation_p.G199S|PLB1_uc002rmd.1_Missense_Mutation_p.G21S	NM_153021	NP_694566	Q6P1J6	PLB1_HUMAN	phospholipase B1 precursor	511	4 X 308-326 AA approximate repeats.|2.|Extracellular (Potential).				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)					CCTGTTTATAGGCGGCAATGA	0.453													12	44	---	---	---	---	PASS
ALK	238	broad.mit.edu	37	2	29416491	29416491	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:29416491C>T	uc002rmy.2	-	29	5369	c.4462G>A	c.(4462-4464)GAG>AAG	p.E1488K	ALK_uc010ymo.1_Missense_Mutation_p.E420K	NM_004304	NP_004295	Q9UM73	ALK_HUMAN	anaplastic lymphoma kinase precursor	1488	Cytoplasmic (Potential).				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)	TTGTGCAACTCCGAAGGAGGG	0.542			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				49	74	---	---	---	---	PASS
YPEL5	51646	broad.mit.edu	37	2	30379532	30379532	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:30379532C>T	uc002rna.3	+	4	576	c.15C>T	c.(13-15)TTC>TTT	p.F5F	YPEL5_uc002rnb.3_Silent_p.F5F|YPEL5_uc002rnc.3_Silent_p.F5F|YPEL5_uc002rmz.3_Silent_p.F5F|YPEL5_uc010ezn.2_Intron|YPEL5_uc002rnd.2_Silent_p.F5F	NM_001127401	NP_001120873	P62699	YPEL5_HUMAN	yippee-like 5	5							peptide-methionine-(S)-S-oxide reductase activity				0	Acute lymphoblastic leukemia(172;0.155)					GCAGAATTTTCCTTGATCATA	0.418													44	53	---	---	---	---	PASS
CAPN13	92291	broad.mit.edu	37	2	30973992	30973992	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:30973992G>A	uc002rnn.2	-	11	1389	c.1213C>T	c.(1213-1215)CCA>TCA	p.P405S	CAPN13_uc002rnp.1_Missense_Mutation_p.P405S	NM_144575	NP_653176	Q6MZZ7	CAN13_HUMAN	calpain 13	405					proteolysis	intracellular	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			large_intestine(1)|ovary(1)	2	all_hematologic(175;0.0487)|Acute lymphoblastic leukemia(172;0.155)					AAATCGAGTGGAAATTTTGCA	0.463													15	30	---	---	---	---	PASS
XDH	7498	broad.mit.edu	37	2	31562393	31562393	+	Missense_Mutation	SNP	G	A	A	rs142329784		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:31562393G>A	uc002rnv.1	-	34	3815	c.3736C>T	c.(3736-3738)CGC>TGC	p.R1246C		NM_000379	NP_000370	P47989	XDH_HUMAN	xanthine dehydrogenase	1246					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)	GGGCAGTCGCGGAGCAGGGAC	0.607													30	58	---	---	---	---	PASS
SRD5A2	6716	broad.mit.edu	37	2	31758810	31758810	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:31758810C>T	uc002rnw.1	-	3	379	c.308G>A	c.(307-309)CGA>CAA	p.R103Q		NM_000348	NP_000339	P31213	S5A2_HUMAN	3-oxo-5 alpha-steroid 4-dehydrogenase 2	103					androgen biosynthetic process|cell differentiation|cell-cell signaling|male gonad development	endoplasmic reticulum membrane|integral to membrane|microsome	3-oxo-5-alpha-steroid 4-dehydrogenase activity|sterol 5-alpha reductase activity				0	Acute lymphoblastic leukemia(172;0.155)				Azelaic Acid(DB00548)|Dutasteride(DB01126)	AGGCCTCCCTCGATTGAGCAG	0.458													8	19	---	---	---	---	PASS
BIRC6	57448	broad.mit.edu	37	2	32768395	32768395	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:32768395G>A	uc010ezu.2	+	62	12513	c.12379G>A	c.(12379-12381)GAG>AAG	p.E4127K		NM_016252	NP_057336	Q9NR09	BIRC6_HUMAN	baculoviral IAP repeat-containing 6	4127					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)					ACAGTCAGGGGAGTTAGTTTA	0.473													78	126	---	---	---	---	PASS
RASGRP3	25780	broad.mit.edu	37	2	33748936	33748936	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:33748936C>T	uc002rox.2	+						RASGRP3_uc010ync.1_Intron|RASGRP3_uc002roy.2_Intron	NM_170672	NP_733772	Q8IV61	GRP3_HUMAN	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)					TCTGAATCTTCCTTTCCTAGT	0.338													25	62	---	---	---	---	PASS
VIT	5212	broad.mit.edu	37	2	37041424	37041424	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:37041424G>A	uc002rpl.2	+	16	2223	c.2002G>A	c.(2002-2004)GAG>AAG	p.E668K	VIT_uc002rpm.2_Missense_Mutation_p.E646K|VIT_uc010ezv.2_Missense_Mutation_p.E624K|VIT_uc010ezw.2_Missense_Mutation_p.E625K	NM_053276	NP_444506	Q6UXI7	VITRN_HUMAN	vitrin	653	VWFA 2.					proteinaceous extracellular matrix				ovary(1)|pancreas(1)	2		all_hematologic(82;0.248)				CTTTGTGGACGAGTTTGACAA	0.527													17	27	---	---	---	---	PASS
HEATR5B	54497	broad.mit.edu	37	2	37230716	37230716	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:37230716C>T	uc002rpp.1	-	31	5115	c.5019G>A	c.(5017-5019)CAG>CAA	p.Q1673Q	HEATR5B_uc002rpo.1_5'Flank|HEATR5B_uc010ezy.1_Silent_p.Q257Q	NM_019024	NP_061897	Q9P2D3	HTR5B_HUMAN	HEAT repeat containing 5B	1673							binding			ovary(5)|skin(2)|breast(1)	8		all_hematologic(82;0.21)				GCAAATAATCCTGAGCAGCTC	0.353													16	32	---	---	---	---	PASS
CEBPZ	10153	broad.mit.edu	37	2	37450511	37450511	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:37450511G>A	uc002rpz.2	-	3	1713	c.1683C>T	c.(1681-1683)TCC>TCT	p.S561S		NM_005760	NP_005751	Q03701	CEBPZ_HUMAN	CCAAT/enhancer binding protein zeta	561					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding			pancreas(1)	1		all_hematologic(82;0.21)				TAGCTTGCTTGGAACACGTCA	0.398													23	35	---	---	---	---	PASS
CEBPZ	10153	broad.mit.edu	37	2	37450512	37450512	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:37450512G>A	uc002rpz.2	-	3	1712	c.1682C>T	c.(1681-1683)TCC>TTC	p.S561F		NM_005760	NP_005751	Q03701	CEBPZ_HUMAN	CCAAT/enhancer binding protein zeta	561					regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding			pancreas(1)	1		all_hematologic(82;0.21)				AGCTTGCTTGGAACACGTCAT	0.398													23	35	---	---	---	---	PASS
C2orf56	55471	broad.mit.edu	37	2	37468858	37468858	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:37468858C>T	uc002rqa.3	+	5	621	c.546C>T	c.(544-546)TCC>TCT	p.S182S	C2orf56_uc010ynj.1_RNA|C2orf56_uc002rqc.3_Intron|C2orf56_uc010ynk.1_Intron|C2orf56_uc010ynl.1_Silent_p.S155S|C2orf56_uc010fah.2_Intron	NM_144736	NP_653337	Q7L592	MIDA_HUMAN	hypothetical protein LOC55471 isoform 1	182					mitochondrial respiratory chain complex I assembly	mitochondrion	enzyme binding|methyltransferase activity			central_nervous_system(1)	1		all_hematologic(82;0.21)				ATGCTGGATCCCCAGTGTATA	0.408													18	47	---	---	---	---	PASS
PRKD3	23683	broad.mit.edu	37	2	37543586	37543586	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:37543586G>A	uc002rqd.2	-	1	637	c.82C>T	c.(82-84)CCG>TCG	p.P28S	PRKD3_uc002rqf.1_Missense_Mutation_p.P28S	NM_005813	NP_005804	O94806	KPCD3_HUMAN	protein kinase D3	28					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)				CTTGAACACGGAGAAGCAGCT	0.488													21	56	---	---	---	---	PASS
FAM82A1	151393	broad.mit.edu	37	2	38231187	38231187	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:38231187G>T	uc002rql.2	+	9	1221	c.1098G>T	c.(1096-1098)AAG>AAT	p.K366N	FAM82A1_uc002rqn.1_Missense_Mutation_p.K544N|FAM82A1_uc002rqm.2_Missense_Mutation_p.K221N	NM_144713	NP_653314	Q96LZ7	RMD2_HUMAN	family with sequence similarity 82, member A1	366						cytoplasm|integral to membrane|microtubule|spindle pole	binding			ovary(1)	1						ACTTAGCAAAGGTAATGAAGA	0.333													4	42	---	---	---	---	PASS
CYP1B1	1545	broad.mit.edu	37	2	38301667	38301667	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:38301667G>A	uc002rqo.2	-	3	1268	c.865C>T	c.(865-867)CCC>TCC	p.P289S		NM_000104	NP_000095	Q16678	CP1B1_HUMAN	cytochrome P450, family 1, subfamily B,	289					visual perception|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding|protein binding			ovary(1)|central_nervous_system(1)	2		all_hematologic(82;0.21)			Estrone(DB00655)	ATGTcgcggggggcggccccg	0.512													6	8	---	---	---	---	PASS
DHX57	90957	broad.mit.edu	37	2	39088781	39088781	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:39088781G>A	uc002rrf.2	-	5	870	c.771C>T	c.(769-771)TCC>TCT	p.S257S	DHX57_uc002rre.2_5'UTR|DHX57_uc002rrg.2_Silent_p.S257S	NM_198963	NP_945314	Q6P158	DHX57_HUMAN	DEAH (Asp-Glu-Ala-Asp/His) box polypeptide 57	257							ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding|zinc ion binding			ovary(1)|lung(1)|skin(1)	3		all_hematologic(82;0.248)				CTCCACAGATGGACTTGAGAG	0.433													27	59	---	---	---	---	PASS
MAP4K3	8491	broad.mit.edu	37	2	39487864	39487864	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:39487864G>A	uc002rro.2	-	29	2282	c.2191C>T	c.(2191-2193)CCT>TCT	p.P731S	MAP4K3_uc002rrp.2_Missense_Mutation_p.P710S|MAP4K3_uc010yns.1_Missense_Mutation_p.P284S	NM_003618	NP_003609	Q8IVH8	M4K3_HUMAN	mitogen-activated protein kinase kinase kinase	731	CNH.				JNK cascade		ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			ovary(3)|lung(3)|stomach(1)|pancreas(1)	8		all_hematologic(82;0.211)				TCCTGTTCAGGAACTACCAGC	0.378													21	34	---	---	---	---	PASS
TMEM178	130733	broad.mit.edu	37	2	39944150	39944150	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:39944150G>A	uc002rrt.2	+	4	678	c.653G>A	c.(652-654)GGG>GAG	p.G218E	TMEM178_uc010fam.1_Missense_Mutation_p.R172Q	NM_152390	NP_689603	Q8NBL3	TM178_HUMAN	transmembrane protein 178 precursor	218	Helical; (Potential).					integral to membrane					0		all_hematologic(82;0.248)				TTATTTATAGGGATATTTTGC	0.408													77	29	---	---	---	---	PASS
SLC8A1	6546	broad.mit.edu	37	2	40655928	40655928	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:40655928A>T	uc002rrx.2	-	1	1517	c.1493T>A	c.(1492-1494)GTC>GAC	p.V498D	SLC8A1_uc002rry.2_Missense_Mutation_p.V498D|SLC8A1_uc002rrz.2_Missense_Mutation_p.V498D|SLC8A1_uc002rsa.2_Missense_Mutation_p.V498D|SLC8A1_uc002rsd.3_Missense_Mutation_p.V498D|SLC8A1_uc002rsb.1_Missense_Mutation_p.V498D|SLC8A1_uc010fan.1_Missense_Mutation_p.V498D|SLC8A1_uc002rsc.1_Missense_Mutation_p.V498D	NM_021097	NP_066920	P32418	NAC1_HUMAN	solute carrier family 8 (sodium/calcium	498	Cytoplasmic (Potential).				cell communication|muscle contraction|platelet activation	integral to plasma membrane	calcium:sodium antiporter activity|calmodulin binding|heat shock protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4					Alpha-Linolenic Acid(DB00132)|Icosapent(DB00159)	AGATACTTTGACATTGCTGAG	0.428													20	32	---	---	---	---	PASS
THADA	63892	broad.mit.edu	37	2	43520065	43520065	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:43520065C>T	uc002rsw.3	-	32	5078	c.4726G>A	c.(4726-4728)GGA>AGA	p.G1576R	THADA_uc010far.2_Missense_Mutation_p.G771R|THADA_uc002rsx.3_Missense_Mutation_p.G1576R|THADA_uc002rsy.3_RNA	NM_001083953	NP_001077422	Q6YHU6	THADA_HUMAN	thyroid adenoma associated	1576							binding			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(82;0.00361)|all_hematologic(82;0.00837)				CCCTTCTCTCCAAGTCCAGAG	0.493													13	27	---	---	---	---	PASS
THADA	63892	broad.mit.edu	37	2	43798883	43798883	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:43798883G>A	uc002rsw.3	-	13	2379	c.2027C>T	c.(2026-2028)CCA>CTA	p.P676L	THADA_uc010far.2_5'Flank|THADA_uc002rsx.3_Missense_Mutation_p.P676L|THADA_uc002rsy.3_RNA|THADA_uc010fas.1_RNA|THADA_uc002rsz.2_Missense_Mutation_p.P386L|THADA_uc010fat.1_5'Flank|THADA_uc002rta.2_Missense_Mutation_p.P386L|THADA_uc002rtb.1_Missense_Mutation_p.P676L|THADA_uc002rtc.3_Missense_Mutation_p.P676L|THADA_uc002rtd.2_Missense_Mutation_p.P676L	NM_001083953	NP_001077422	Q6YHU6	THADA_HUMAN	thyroid adenoma associated	676							binding			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(82;0.00361)|all_hematologic(82;0.00837)				CCGCACTCCTGGAGACTGGCT	0.398													43	78	---	---	---	---	PASS
PLEKHH2	130271	broad.mit.edu	37	2	43972996	43972996	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:43972996C>T	uc010yny.1	+							NM_172069	NP_742066	Q8IVE3	PKHH2_HUMAN	pleckstrin homology domain containing, family H							cytoplasm|cytoskeleton|integral to membrane	binding			skin(2)|central_nervous_system(1)	3		all_hematologic(82;0.166)|Acute lymphoblastic leukemia(82;0.17)				TTTTCCACTTCCTTTCTAGAT	0.353													7	18	---	---	---	---	PASS
EPAS1	2034	broad.mit.edu	37	2	46607560	46607560	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:46607560C>T	uc002ruv.2	+	12	2237	c.1749C>T	c.(1747-1749)TTC>TTT	p.F583F	EPAS1_uc002ruw.2_Silent_p.F49F	NM_001430	NP_001421	Q99814	EPAS1_HUMAN	endothelial PAS domain protein 1	583					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)			ACAGTCCCTTCCTCCTGGACA	0.597													24	39	---	---	---	---	PASS
SOCS5	9655	broad.mit.edu	37	2	46986423	46986423	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:46986423C>T	uc002rvf.2	+	2	918	c.754C>T	c.(754-756)CCA>TCA	p.P252S	SOCS5_uc010yoe.1_Missense_Mutation_p.P221S|SOCS5_uc002rvg.2_Missense_Mutation_p.P252S	NM_014011	NP_054730	O75159	SOCS5_HUMAN	suppressor of cytokine signaling 5	252					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)			TACATTTGATCCATCTTTGGT	0.423													13	36	---	---	---	---	PASS
SOCS5	9655	broad.mit.edu	37	2	46987060	46987060	+	Missense_Mutation	SNP	C	T	T	rs149307689		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:46987060C>T	uc002rvf.2	+	2	1555	c.1391C>T	c.(1390-1392)TCG>TTG	p.S464L	SOCS5_uc010yoe.1_Missense_Mutation_p.S433L|SOCS5_uc002rvg.2_Missense_Mutation_p.S464L	NM_014011	NP_054730	O75159	SOCS5_HUMAN	suppressor of cytokine signaling 5	464	SH2.				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)			GATCCCAGTTCGTGCATGTTT	0.438													20	54	---	---	---	---	PASS
KLRAQ1	129285	broad.mit.edu	37	2	48681800	48681800	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:48681800C>T	uc002rwm.2	+	3	378	c.193C>T	c.(193-195)CGA>TGA	p.R65*	KLRAQ1_uc002rwi.1_Nonsense_Mutation_p.R65*|KLRAQ1_uc002rwj.2_Nonsense_Mutation_p.R65*|KLRAQ1_uc002rwl.2_Nonsense_Mutation_p.R19*|KLRAQ1_uc002rwk.2_Nonsense_Mutation_p.R65*|KLRAQ1_uc010yok.1_Nonsense_Mutation_p.R65*	NM_001135629	NP_001129101	Q6ZMI0	KLRAQ_HUMAN	KLRAQ motif containing 1 isoform 1	65	Potential.									ovary(1)	1						TTTGACATTTCGAAATCTGCA	0.403													19	42	---	---	---	---	PASS
KLRAQ1	129285	broad.mit.edu	37	2	48698265	48698265	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:48698265C>T	uc002rwm.2	+	10	1122	c.937C>T	c.(937-939)CCT>TCT	p.P313S	KLRAQ1_uc002rwi.1_Missense_Mutation_p.P313S|KLRAQ1_uc002rwj.2_Missense_Mutation_p.P313S|KLRAQ1_uc002rwl.2_Missense_Mutation_p.P267S|KLRAQ1_uc002rwk.2_Missense_Mutation_p.P313S|KLRAQ1_uc010yok.1_Missense_Mutation_p.P313S	NM_001135629	NP_001129101	Q6ZMI0	KLRAQ_HUMAN	KLRAQ motif containing 1 isoform 1	313										ovary(1)	1						CTATGTCCGCCCTCTTGAGGA	0.373													11	21	---	---	---	---	PASS
STON1-GTF2A1L	286749	broad.mit.edu	37	2	48808054	48808054	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:48808054C>T	uc010yol.1	+	1	329	c.282C>T	c.(280-282)ATC>ATT	p.I94I	STON1_uc002rwo.3_Silent_p.I94I|STON1_uc010fbm.2_Silent_p.I94I|STON1-GTF2A1L_uc002rwp.1_Silent_p.I94I|STON1_uc002rwr.2_RNA|STON1_uc002rwq.2_Silent_p.I94I	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	94					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)			TTCCTGGCATCCCCAAAGCAG	0.473													34	64	---	---	---	---	PASS
STON1-GTF2A1L	286749	broad.mit.edu	37	2	48873632	48873632	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:48873632G>A	uc010yol.1	+	5	2447	c.2400G>A	c.(2398-2400)GAG>GAA	p.E800E	STON1-GTF2A1L_uc002rwp.1_Silent_p.E847E|GTF2A1L_uc002rws.1_Silent_p.E143E|GTF2A1L_uc010yom.1_Silent_p.E109E|GTF2A1L_uc002rwt.2_Silent_p.E143E	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	800					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)			TGGTGACAGAGACTTCTGGAA	0.353													16	28	---	---	---	---	PASS
STON1-GTF2A1L	286749	broad.mit.edu	37	2	48898743	48898743	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:48898743C>T	uc010yol.1	+	7	3271	c.3224C>T	c.(3223-3225)TCT>TTT	p.S1075F	STON1-GTF2A1L_uc002rwp.1_Missense_Mutation_p.S1122F|GTF2A1L_uc002rws.1_Missense_Mutation_p.S418F|GTF2A1L_uc010yom.1_Missense_Mutation_p.S384F|GTF2A1L_uc002rwt.2_Missense_Mutation_p.S418F	NM_006873	NP_006864	B7ZL16	B7ZL16_HUMAN	stonin 1	1075					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)			CCTTTAAATTCTGGAGATGAT	0.328													19	40	---	---	---	---	PASS
LHCGR	3973	broad.mit.edu	37	2	48936160	48936160	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:48936160C>T	uc002rwu.3	-	8	677	c.607G>A	c.(607-609)GAG>AAG	p.E203K	GTF2A1L_uc002rwt.2_Intron|LHCGR_uc002rwv.2_RNA	NM_000233	NP_000224	P22888	LSHR_HUMAN	luteinizing hormone/choriogonadotropin receptor	203	Extracellular (Potential).|LRR 5.				male genitalia development|male gonad development	endosome|integral to plasma membrane	luteinizing hormone receptor activity			ovary(3)|lung(2)|breast(2)|skin(1)	8		all_hematologic(82;0.151)|Acute lymphoblastic leukemia(82;0.176)	Lung(47;0.101)|LUSC - Lung squamous cell carcinoma(58;0.151)		Cetrorelix(DB00050)|Choriogonadotropin alfa(DB00097)|Goserelin(DB00014)|Lutropin alfa(DB00044)|Menotropins(DB00032)	TCCTTTAGCTCCCTGTGGGGA	0.493									Familial_Male-Limited_Precocious_Puberty				19	33	---	---	---	---	PASS
FSHR	2492	broad.mit.edu	37	2	49191091	49191091	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:49191091G>T	uc002rww.2	-	10	943	c.869C>A	c.(868-870)CCA>CAA	p.P290Q	FSHR_uc002rwx.2_Missense_Mutation_p.P228Q|FSHR_uc010fbn.2_Missense_Mutation_p.P264Q	NM_000145	NP_000136	P23945	FSHR_HUMAN	follicle stimulating hormone receptor isoform 1	290	Extracellular (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)	GTTGCAAATTGGATGAAGCTC	0.388									Gonadal_Dysgenesis_46_XX				7	130	---	---	---	---	PASS
NRXN1	9378	broad.mit.edu	37	2	50280573	50280573	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:50280573C>T	uc010fbp.2	-	4	1576	c.769G>A	c.(769-771)GGA>AGA	p.G257R	NRXN1_uc002rxb.3_Missense_Mutation_p.G994R|NRXN1_uc010fbq.2_Missense_Mutation_p.G1362R|NRXN1_uc002rxe.3_Missense_Mutation_p.G1292R	NM_138735	NP_620072	P58400	NRX1B_HUMAN	neurexin 1 isoform beta precursor	257	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)			CTCACATTTCCCACTATGGCG	0.507													17	35	---	---	---	---	PASS
NRXN1	9378	broad.mit.edu	37	2	50847151	50847151	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:50847151G>A	uc010fbq.2	-						NRXN1_uc002rxb.3_Intron|NRXN1_uc002rxe.3_Intron|NRXN1_uc002rxc.1_Intron	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 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)			TGATGGCAACGATATTTACCT	0.463													22	25	---	---	---	---	PASS
VRK2	7444	broad.mit.edu	37	2	58386588	58386588	+	Silent	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:58386588T>C	uc002rzo.2	+	16	2032	c.1287T>C	c.(1285-1287)TTT>TTC	p.F429F	VRK2_uc010fcb.2_3'UTR|VRK2_uc002rzs.2_3'UTR|VRK2_uc002rzr.2_3'UTR|VRK2_uc010fcc.2_Silent_p.F311F|VRK2_uc002rzv.2_Silent_p.F429F|VRK2_uc010fcd.2_Silent_p.F406F|VRK2_uc002rzp.2_Silent_p.F429F|VRK2_uc010ypg.1_Silent_p.F429F|VRK2_uc002rzq.2_3'UTR|VRK2_uc002rzu.2_3'UTR|VRK2_uc002rzt.2_Silent_p.F311F|FANCL_uc002rzw.3_3'UTR|FANCL_uc002rzx.3_3'UTR|FANCL_uc010fce.2_3'UTR	NM_001130482	NP_001123954	Q86Y07	VRK2_HUMAN	vaccinia related kinase 2 isoform 2	429						integral to membrane	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)	1						CAAACTCATTTTATGAGCCTC	0.383													19	36	---	---	---	---	PASS
PAPOLG	64895	broad.mit.edu	37	2	61014149	61014149	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:61014149C>T	uc002sai.2	+	14	1465	c.1234C>T	c.(1234-1236)CTT>TTT	p.L412F	PAPOLG_uc002saj.2_Missense_Mutation_p.L101F|PAPOLG_uc002sak.2_5'UTR|PAPOLG_uc010fch.2_Missense_Mutation_p.L101F	NM_022894	NP_075045	Q9BWT3	PAPOG_HUMAN	poly(A) polymerase gamma	412					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)			ATTTATTACTCTTGCCCATGT	0.303													17	33	---	---	---	---	PASS
FAM161A	84140	broad.mit.edu	37	2	62069296	62069296	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:62069296G>A	uc010ypo.1	-	2	485	c.383C>T	c.(382-384)CCA>CTA	p.P128L	FAM161A_uc002sbm.3_Missense_Mutation_p.P128L|FAM161A_uc002sbn.3_5'UTR|FAM161A_uc010fcm.1_RNA|FAM161A_uc010fcn.1_Missense_Mutation_p.P19L	NM_032180	NP_115556	Q3B820	F161A_HUMAN	hypothetical protein LOC84140	128					response to stimulus|visual perception	centrosome				large_intestine(2)|ovary(1)	3						GATGACCACTGGCTGAACTTC	0.348													25	68	---	---	---	---	PASS
C2orf86	51057	broad.mit.edu	37	2	63605587	63605587	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:63605587G>A	uc002sch.2	-	12	2128	c.1682C>T	c.(1681-1683)TCC>TTC	p.S561F	C2orf86_uc002sce.2_RNA|C2orf86_uc002scf.2_Missense_Mutation_p.S402F|C2orf86_uc010ypu.1_RNA|C2orf86_uc002scg.2_Missense_Mutation_p.S369F|C2orf86_uc002sci.1_Missense_Mutation_p.S537F	NM_015910	NP_056994	O95876	FRITZ_HUMAN	hypothetical protein LOC51057 isoform 2	561					cilium morphogenesis|regulation of embryonic cell shape|regulation of protein localization|septin cytoskeleton organization	cilium axoneme|cytoplasm|cytoskeleton|plasma membrane					0						CAATATAGTGGAATCCAGAAG	0.403													21	39	---	---	---	---	PASS
PELI1	57162	broad.mit.edu	37	2	64322102	64322102	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:64322102G>A	uc002scs.3	-	6	5030	c.991C>T	c.(991-993)CGT>TGT	p.R331C	PELI1_uc002sct.3_Missense_Mutation_p.R331C|PELI1_uc002scr.3_Missense_Mutation_p.R152C	NM_020651	NP_065702	Q96FA3	PELI1_HUMAN	pellino protein	331					innate immune response|MyD88-dependent 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 4 signaling pathway	cytosol				ovary(1)	1						GGACATTCACGATCTTTTCCA	0.463													42	96	---	---	---	---	PASS
HSPC159	29094	broad.mit.edu	37	2	64682722	64682722	+	Splice_Site	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:64682722G>A	uc002scy.3	+	3	462	c.109_splice	c.e3-1	p.I37_splice		NM_014181	NP_054900	Q3ZCW2	LEGL_HUMAN	galectin-related protein							intracellular	sugar binding				0						ACCCTTTTCAGATAGTTCCAT	0.468													9	22	---	---	---	---	PASS
AFTPH	54812	broad.mit.edu	37	2	64812640	64812640	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:64812640G>A	uc002sdc.2	+	8	2656	c.2624G>A	c.(2623-2625)AGA>AAA	p.R875K	AFTPH_uc002scz.2_Missense_Mutation_p.R875K|AFTPH_uc002sda.2_Missense_Mutation_p.R847K|AFTPH_uc002sdb.2_Missense_Mutation_p.R847K	NM_203437	NP_982261	Q6ULP2	AFTIN_HUMAN	aftiphilin protein isoform a	875					protein transport	AP-1 adaptor complex|cytosol|nucleus	clathrin binding			ovary(2)	2						GCATTTGCAAGACTCATGTCT	0.383													38	103	---	---	---	---	PASS
RAB1A	5861	broad.mit.edu	37	2	65325206	65325206	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:65325206G>A	uc002sdm.2	-						RAB1A_uc002sdn.2_Intron|RAB1A_uc010yqe.1_Intron|RAB1A_uc002sdo.2_Intron	NM_004161	NP_004152	P62820	RAB1A_HUMAN	RAB1A, member RAS oncogene family isoform 1						protein transport|small GTPase mediated signal transduction|vesicle-mediated transport	endoplasmic reticulum|Golgi apparatus	GTP binding|GTPase activity				0						TCATCCTGAAGGGGGAAATAA	0.313													3	8	---	---	---	---	PASS
RAB1A	5861	broad.mit.edu	37	2	65325207	65325207	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:65325207G>A	uc002sdm.2	-						RAB1A_uc002sdn.2_Intron|RAB1A_uc010yqe.1_Intron|RAB1A_uc002sdo.2_Intron	NM_004161	NP_004152	P62820	RAB1A_HUMAN	RAB1A, member RAS oncogene family isoform 1						protein transport|small GTPase mediated signal transduction|vesicle-mediated transport	endoplasmic reticulum|Golgi apparatus	GTP binding|GTPase activity				0						CATCCTGAAGGGGGAAATAAT	0.313													3	8	---	---	---	---	PASS
WDR92	116143	broad.mit.edu	37	2	68384830	68384830	+	5'Flank	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:68384830G>A	uc002see.1	-						WDR92_uc002sed.1_5'Flank|WDR92_uc002sef.1_5'Flank|WDR92_uc002seg.1_5'Flank|PNO1_uc002seh.2_5'Flank	NM_138458	NP_612467	Q96MX6	WDR92_HUMAN	monad						apoptosis|histone lysine methylation		methylated histone residue binding				0						ATACATACTAGAGATTACAAA	0.517													8	18	---	---	---	---	PASS
PLEK	5341	broad.mit.edu	37	2	68607526	68607526	+	Nonsense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:68607526A>T	uc002sen.3	+	2	271	c.109A>T	c.(109-111)AAG>TAG	p.K37*	PLEK_uc010fde.2_Nonsense_Mutation_p.K37*	NM_002664	NP_002655	P08567	PLEK_HUMAN	pleckstrin	37	PH 1.				actin cytoskeleton reorganization|cortical actin cytoskeleton organization|hemopoietic progenitor cell differentiation|inhibition of phospholipase C activity involved in G-protein coupled receptor signaling pathway|integrin-mediated signaling pathway|negative regulation of calcium-mediated signaling|negative regulation of inositol phosphate biosynthetic process|phosphatidylinositol metabolic process|platelet aggregation|positive regulation of actin filament bundle assembly|positive regulation of actin filament depolymerization|positive regulation of inositol-polyphosphate 5-phosphatase activity|positive regulation of integrin activation|positive regulation of platelet activation|protein kinase C signaling cascade|protein secretion by platelet|regulation of cell diameter|ruffle organization|thrombin receptor signaling pathway|vesicle docking involved in exocytosis	cytosol|extracellular region|membrane fraction|ruffle membrane|soluble fraction	phosphatidylinositol-3,4-bisphosphate binding|protein homodimerization activity|protein kinase C binding			ovary(1)	1		Ovarian(717;0.0129)		STAD - Stomach adenocarcinoma(1183;0.00159)|READ - Rectum adenocarcinoma(193;0.0419)		TGAATTCTATAAGAAGAAAAG	0.443													21	42	---	---	---	---	PASS
MPHOSPH10	10199	broad.mit.edu	37	2	71360531	71360531	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:71360531C>T	uc002sht.1	+	2	945	c.593C>T	c.(592-594)TCC>TTC	p.S198F	MPHOSPH10_uc010feb.1_Missense_Mutation_p.S198F	NM_005791	NP_005782	O00566	MPP10_HUMAN	M-phase phosphoprotein 10	198					RNA splicing, via transesterification reactions|rRNA processing	chromosome|nucleolus|small nucleolar ribonucleoprotein complex	protein binding			skin(2)|ovary(1)	3						AGAGAAAAGTCCATAGTAGAT	0.378													29	81	---	---	---	---	PASS
ZNF638	27332	broad.mit.edu	37	2	71591282	71591282	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:71591282C>T	uc002shx.2	+	5	1936	c.1617C>T	c.(1615-1617)TCC>TCT	p.S539S	ZNF638_uc010fec.2_Silent_p.S645S|ZNF638_uc010yqw.1_Silent_p.S118S|ZNF638_uc002shw.2_Silent_p.S539S|ZNF638_uc002shy.2_Silent_p.S539S|ZNF638_uc002shz.2_Silent_p.S539S|ZNF638_uc002sia.2_Silent_p.S539S|ZNF638_uc002sib.1_Silent_p.S539S|ZNF638_uc010fed.2_5'Flank	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	539	Arg-rich.				RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						GATCCAGATCCCGTTCACCAT	0.438													24	35	---	---	---	---	PASS
ZNF638	27332	broad.mit.edu	37	2	71654208	71654208	+	Missense_Mutation	SNP	G	A	A	rs4479447		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:71654208G>A	uc002shx.2	+	24	5528	c.5209G>A	c.(5209-5211)GAT>AAT	p.D1737N	ZNF638_uc002shy.2_Missense_Mutation_p.D1737N|ZNF638_uc002shz.2_Missense_Mutation_p.D1737N|ZNF638_uc002sia.2_Missense_Mutation_p.D1737N|ZNF638_uc002sib.1_3'UTR|ZNF638_uc010fed.2_Intron|ZNF638_uc002sic.2_Missense_Mutation_p.D834N|ZNF638_uc002sid.2_Missense_Mutation_p.D106N	NM_014497	NP_055312	Q14966	ZN638_HUMAN	zinc finger protein 638	1737					RNA splicing	cytoplasm|nuclear speck	double-stranded DNA binding|nucleotide binding|RNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						AGTTACTGTAGATGAAATACA	0.383													24	64	---	---	---	---	PASS
CYP26B1	56603	broad.mit.edu	37	2	72361913	72361913	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:72361913C>T	uc002sih.1	-	4	838	c.838G>A	c.(838-840)GAG>AAG	p.E280K	CYP26B1_uc010yra.1_Missense_Mutation_p.E263K|CYP26B1_uc010yrb.1_Missense_Mutation_p.E205K	NM_019885	NP_063938	Q9NR63	CP26B_HUMAN	cytochrome P450, family 26, subfamily b,	280					cell fate determination|embryonic limb morphogenesis|male meiosis|negative regulation of retinoic acid receptor signaling pathway|proximal/distal pattern formation|retinoic acid catabolic process|spermatogenesis|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	electron carrier activity|heme binding|retinoic acid 4-hydroxylase activity|retinoic acid binding			skin(2)	2						ATGGTCATCTCCTTCCCGTGC	0.617													15	27	---	---	---	---	PASS
EMX1	2016	broad.mit.edu	37	2	73160999	73160999	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:73160999G>A	uc002sin.1	+	3	1167	c.789G>A	c.(787-789)AAG>AAA	p.K263K	EMX1_uc002sim.1_3'UTR	NM_004097	NP_004088	Q04741	EMX1_HUMAN	empty spiracles homolog 1	230						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						AGCAGAAGAAGAAGGGCTCCC	0.582													10	24	---	---	---	---	PASS
ALMS1	7840	broad.mit.edu	37	2	73800511	73800511	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:73800511C>T	uc002sje.1	+	18	11621	c.11510C>T	c.(11509-11511)CCC>CTC	p.P3837L	ALMS1_uc002sjf.1_Missense_Mutation_p.P3793L|ALMS1_uc002sjg.2_Missense_Mutation_p.P3223L|ALMS1_uc002sjh.1_Missense_Mutation_p.P3223L	NM_015120	NP_055935	Q8TCU4	ALMS1_HUMAN	Alstrom syndrome 1	3835					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						ACAGGTCATCCCCTAGTGACT	0.458													10	32	---	---	---	---	PASS
C2orf78	388960	broad.mit.edu	37	2	74043295	74043295	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:74043295G>A	uc002sjr.1	+	3	2066	c.1945G>A	c.(1945-1947)GGA>AGA	p.G649R		NM_001080474	NP_001073943	A6NCI8	CB078_HUMAN	hypothetical protein LOC388960	649										ovary(2)	2						TATGAAAACTGGATTCTCTTC	0.502													21	69	---	---	---	---	PASS
SLC4A5	57835	broad.mit.edu	37	2	74480165	74480165	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:74480165G>A	uc002sko.1	-	10	1206	c.1204C>T	c.(1204-1206)CCT>TCT	p.P402S	SLC4A5_uc002skl.2_RNA|SLC4A5_uc002skn.2_Missense_Mutation_p.P402S|SLC4A5_uc010ffc.1_Missense_Mutation_p.P402S|SLC4A5_uc002skp.1_Missense_Mutation_p.P338S|SLC4A5_uc002sks.1_Missense_Mutation_p.P402S	NM_021196	NP_067019	Q9BY07	S4A5_HUMAN	sodium bicarbonate transporter 4 isoform a	402	Cytoplasmic (Potential).					apical plasma membrane|integral to membrane	inorganic anion exchanger activity|sodium:bicarbonate symporter activity			ovary(5)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	9						CATTCTCCAGGAGGAAGGACG	0.527													19	17	---	---	---	---	PASS
MOGS	7841	broad.mit.edu	37	2	74688726	74688726	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:74688726G>A	uc010ffj.2	-	4	2353	c.2190C>T	c.(2188-2190)TCC>TCT	p.S730S	MOGS_uc010ffh.2_Silent_p.S455S|MOGS_uc010yrt.1_Silent_p.S611S|MOGS_uc010ffi.2_Silent_p.S624S	NM_006302	NP_006293	Q13724	MOGS_HUMAN	mannosyl-oligosaccharide glucosidase isoform 1	730	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						AGGCTGCAAGGGAGCGTAAAC	0.607													19	37	---	---	---	---	PASS
MOGS	7841	broad.mit.edu	37	2	74688727	74688727	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:74688727G>T	uc010ffj.2	-	4	2352	c.2189C>A	c.(2188-2190)TCC>TAC	p.S730Y	MOGS_uc010ffh.2_Missense_Mutation_p.S455Y|MOGS_uc010yrt.1_Missense_Mutation_p.S611Y|MOGS_uc010ffi.2_Missense_Mutation_p.S624Y	NM_006302	NP_006293	Q13724	MOGS_HUMAN	mannosyl-oligosaccharide glucosidase isoform 1	730	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						GGCTGCAAGGGAGCGTAAACC	0.602													20	37	---	---	---	---	PASS
C2orf65	130951	broad.mit.edu	37	2	74789505	74789505	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:74789505C>T	uc002smy.2	-	8	1237	c.1120G>A	c.(1120-1122)GGA>AGA	p.G374R	C2orf65_uc010ysa.1_Missense_Mutation_p.G374R|C2orf65_uc010ffp.2_Intron|C2orf65_uc002smx.2_Missense_Mutation_p.G130R	NM_138804	NP_620159	Q8TC57	CB065_HUMAN	hypothetical protein LOC130951	374					chromatin assembly|female gamete generation|RNA processing|spermatogenesis	integral to membrane				ovary(1)|pancreas(1)	2						TGGCTGTGTCCTGGGCCCGGT	0.527													23	39	---	---	---	---	PASS
HK2	3099	broad.mit.edu	37	2	75104379	75104379	+	Missense_Mutation	SNP	G	T	T	rs36066402	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:75104379G>T	uc002snd.2	+	8	2888	c.962G>T	c.(961-963)GGG>GTG	p.G321V		NM_000189	NP_000180	P52789	HXK2_HUMAN	hexokinase 2	321	Regulatory.				apoptotic mitochondrial changes|glucose transport|glycolysis|transmembrane transport	cytosol|mitochondrial outer membrane	ATP binding|glucokinase activity			ovary(1)|lung(1)	2						CTGCTCTTTGGGGGGAAGCTC	0.547													6	165	---	---	---	---	PASS
C2orf3	6936	broad.mit.edu	37	2	75933713	75933713	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:75933713C>T	uc002sno.2	-	2	460	c.330G>A	c.(328-330)AAG>AAA	p.K110K	C2orf3_uc002snn.2_5'UTR|C2orf3_uc010fft.2_5'UTR|C2orf3_uc002snp.3_Silent_p.K110K	NM_003203	NP_003194	P16383	GCF_HUMAN	hypothetical protein LOC6936	110					negative regulation of transcription, DNA-dependent	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						CCTGATCATCCTTACTTTCTG	0.338													16	45	---	---	---	---	PASS
REG1B	5968	broad.mit.edu	37	2	79313613	79313613	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:79313613C>T	uc002sny.2	-	4	313	c.201G>A	c.(199-201)ATG>ATA	p.M67I	REG1B_uc010ffv.1_Missense_Mutation_p.M67I|REG1B_uc010ffw.2_3'UTR	NM_006507	NP_006498	P48304	REG1B_HUMAN	regenerating islet-derived 1 beta precursor	67	C-type lectin.				cell proliferation	extracellular region	sugar binding			central_nervous_system(1)|skin(1)	2						TGCCTGAATTCATGTTCTGGC	0.498													31	57	---	---	---	---	PASS
REG1A	5967	broad.mit.edu	37	2	79348738	79348738	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:79348738G>A	uc002snz.2	+	3	218	c.115G>A	c.(115-117)GGC>AGC	p.G39S	REG1A_uc010ffx.1_Missense_Mutation_p.G39S|REG1A_uc010ysd.1_Missense_Mutation_p.G39S	NM_002909	NP_002900	P05451	REG1A_HUMAN	regenerating islet-derived 1 alpha precursor	39	C-type lectin.				positive regulation of cell proliferation	extracellular region	growth factor activity|sugar binding				0						CTGCCCAGAAGGCACCAATGC	0.532													83	117	---	---	---	---	PASS
REG1A	5967	broad.mit.edu	37	2	79349168	79349168	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:79349168G>A	uc002snz.2	+	4	341	c.238G>A	c.(238-240)GAG>AAG	p.E80K	REG1A_uc010ffx.1_3'UTR|REG1A_uc010ysd.1_Missense_Mutation_p.E80K	NM_002909	NP_002900	P05451	REG1A_HUMAN	regenerating islet-derived 1 alpha precursor	80	C-type lectin.				positive regulation of cell proliferation	extracellular region	growth factor activity|sugar binding				0						CACCCAGGCCGAGGGTGCCTT	0.522													38	45	---	---	---	---	PASS
CTNNA2	1496	broad.mit.edu	37	2	80096945	80096945	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:80096945G>A	uc010ysh.1	+	4	474	c.469G>A	c.(469-471)GAA>AAA	p.E157K	CTNNA2_uc010yse.1_Missense_Mutation_p.E157K|CTNNA2_uc010ysf.1_Missense_Mutation_p.E157K|CTNNA2_uc010ysg.1_Missense_Mutation_p.E157K	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	157					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						ACTGCAGGTGGAAGAGGCCCT	0.358													16	47	---	---	---	---	PASS
CTNNA2	1496	broad.mit.edu	37	2	80846328	80846328	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:80846328G>A	uc010ysh.1	+	17	2554	c.2549G>A	c.(2548-2550)GGG>GAG	p.G850E	CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysi.1_Intron|CTNNA2_uc010ysj.1_Intron	NM_004389	NP_004380	P26232	CTNA2_HUMAN	catenin, alpha 2 isoform 1	850					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						GCTCCGATCGGGAGTGGAAGC	0.453													6	12	---	---	---	---	PASS
ELMOD3	84173	broad.mit.edu	37	2	85598247	85598247	+	Silent	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:85598247C>A	uc002spf.3	+	10	1064	c.399C>A	c.(397-399)GCC>GCA	p.A133A	ELMOD3_uc010fgg.2_RNA|ELMOD3_uc002spg.3_Silent_p.A133A|ELMOD3_uc002sph.3_Silent_p.A133A|ELMOD3_uc010ysn.1_Silent_p.A133A|ELMOD3_uc010yso.1_RNA|ELMOD3_uc010ysp.1_RNA	NM_001135021	NP_001128493	Q96FG2	ELMD3_HUMAN	ELMO/CED-12 domain containing 3 isoform b	133					phagocytosis	cytoskeleton				ovary(2)	2						CTGGGCTCGCCGCCCTCCGAC	0.542													4	102	---	---	---	---	PASS
MAT2A	4144	broad.mit.edu	37	2	85769398	85769398	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:85769398G>A	uc002spr.2	+	6	793	c.670G>A	c.(670-672)GAG>AAG	p.E224K	MAT2A_uc010ysr.1_Missense_Mutation_p.E224K|MAT2A_uc010fgk.2_Missense_Mutation_p.E198K|MAT2A_uc010fgl.2_Missense_Mutation_p.E161K|MAT2A_uc010fgm.1_3'UTR	NM_005911	NP_005902	P31153	METK2_HUMAN	methionine adenosyltransferase II, alpha	224					methylation|xenobiotic metabolic process	cytosol	ATP binding|metal ion binding|methionine adenosyltransferase activity				0					L-Methionine(DB00134)|S-Adenosylmethionine(DB00118)	TGCCCTAAAGGAGAAAGTCAT	0.458													21	43	---	---	---	---	PASS
TMEM150A	129303	broad.mit.edu	37	2	85829076	85829076	+	5'UTR	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:85829076G>A	uc002spw.1	-	1					USP39_uc002sqb.2_5'Flank|TMEM150A_uc002spx.1_5'UTR|TMEM150A_uc002spz.1_5'UTR|TMEM150A_uc002sqa.1_5'UTR|TMEM150A_uc002spy.1_5'UTR	NM_001031738	NP_001026908	Q86TG1	T150A_HUMAN	transmembrane protein 150A isoform 1							integral to membrane|plasma membrane					0						GGTCATGAGGGAGGGGAGCCA	0.607													47	91	---	---	---	---	PASS
POLR1A	25885	broad.mit.edu	37	2	86258525	86258525	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:86258525G>A	uc002sqs.2	-	30	4885	c.4506C>T	c.(4504-4506)GTC>GTT	p.V1502V	POLR1A_uc010ytb.1_Silent_p.V868V	NM_015425	NP_056240	O95602	RPA1_HUMAN	DNA-directed RNA polymerase I A	1502					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						GCACAGCCTGGACCCGGCGCT	0.677													37	48	---	---	---	---	PASS
POLR1A	25885	broad.mit.edu	37	2	86258607	86258607	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:86258607G>A	uc002sqs.2	-	30	4803	c.4424C>T	c.(4423-4425)TCC>TTC	p.S1475F	POLR1A_uc010ytb.1_Missense_Mutation_p.S841F	NM_015425	NP_056240	O95602	RPA1_HUMAN	DNA-directed RNA polymerase I A	1475					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						GGCGGGAAGGGACGGGTCCTC	0.592													26	42	---	---	---	---	PASS
REEP1	65055	broad.mit.edu	37	2	86459855	86459855	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:86459855C>T	uc002srh.3	-	6	632	c.488G>A	c.(487-489)GGC>GAC	p.G163D	REEP1_uc010ytg.1_Missense_Mutation_p.G142D|REEP1_uc010yth.1_Missense_Mutation_p.G136D|REEP1_uc010yti.1_Missense_Mutation_p.A85T	NM_022912	NP_075063	Q9H902	REEP1_HUMAN	receptor accessory protein 1 isoform 2	163					cell death|protein insertion into membrane	integral to membrane|mitochondrial membrane	olfactory receptor binding				0						AGCAGGGGCGCCGTCTCCCCT	0.657													5	27	---	---	---	---	PASS
REEP1	65055	broad.mit.edu	37	2	86459856	86459856	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:86459856C>T	uc002srh.3	-	6	631	c.487G>A	c.(487-489)GGC>AGC	p.G163S	REEP1_uc010ytg.1_Missense_Mutation_p.G142S|REEP1_uc010yth.1_Missense_Mutation_p.G136S|REEP1_uc010yti.1_Silent_p.T84T	NM_022912	NP_075063	Q9H902	REEP1_HUMAN	receptor accessory protein 1 isoform 2	163					cell death|protein insertion into membrane	integral to membrane|mitochondrial membrane	olfactory receptor binding				0						GCAGGGGCGCCGTCTCCCCTG	0.657													7	26	---	---	---	---	PASS
RNF103	7844	broad.mit.edu	37	2	86831609	86831609	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:86831609G>A	uc002srn.2	-	4	2384	c.1415C>T	c.(1414-1416)TCT>TTT	p.S472F	VPS24_uc010ytl.1_Intron|RNF103_uc002srm.2_Missense_Mutation_p.S333F|uc002sro.2_Intron	NM_005667	NP_005658	O00237	RN103_HUMAN	ring finger protein 103	472					central nervous system development|ER-associated protein catabolic process	endoplasmic reticulum membrane|integral to membrane	protein binding|ubiquitin-protein ligase activity|zinc ion binding			central_nervous_system(1)	1						GTTCTGAAAAGAAGCAATCGG	0.458													23	39	---	---	---	---	PASS
CD8B	926	broad.mit.edu	37	2	87042750	87042750	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:87042750G>A	uc002srw.2	-	6	762	c.712C>T	c.(712-714)CCA>TCA	p.P238S	RMND5A_uc002srs.3_Intron|CD8B_uc002srx.2_3'UTR|CD8B_uc002sry.2_Missense_Mutation_p.P208S|CD8B_uc010fgt.2_Silent_p.T195T	NM_172213	NP_757362	P10966	CD8B_HUMAN	CD8b antigen isoform 2 precursor	Error:Variant_position_missing_in_P10966_after_alignment					immune response|regulation of defense response to virus by virus|regulation of immune response|T cell activation|transmembrane receptor protein tyrosine kinase signaling pathway|viral reproduction	early endosome|extracellular region|integral to plasma membrane|T cell receptor complex	coreceptor activity|MHC class I protein binding			upper_aerodigestive_tract(1)|skin(1)	2						AGGATCCATGGGTTAAGCAGC	0.483													98	231	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	2	89986880	89986880	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:89986880G>A	uc010fhm.2	+						uc002stn.1_RNA					Parts of antibodies, mostly variable regions.																		CATAGTGATGGAAAGACCTAT	0.532													14	41	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	2	90108861	90108861	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:90108861C>T	uc010fhm.2	+											Parts of antibodies, mostly variable regions.																		TCACCATCACCTGCCAGGCCA	0.502													22	29	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	2	90193011	90193011	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:90193011G>A	uc010fhm.2	+											Parts of antibodies, mostly variable regions.																		AGGTAAGGAAGGAGAACACTA	0.522													39	72	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	2	90212096	90212096	+	RNA	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:90212096C>T	uc010fhm.2	+	26		c.3520C>T								Parts of antibodies, mostly variable regions.																		CCTGGCCAGGCTCCCAGGCTC	0.592													34	49	---	---	---	---	PASS
MAL	4118	broad.mit.edu	37	2	95713853	95713853	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:95713853G>A	uc002stx.1	+	2	302	c.243G>A	c.(241-243)GAG>GAA	p.E81E	MAL_uc002sty.1_Intron|MAL_uc002stz.1_Silent_p.E81E|MAL_uc002sua.1_Intron	NM_002371	NP_002362	P21145	MAL_HUMAN	T-lymphocyte maturation-associated protein	81	Cytoplasmic (Potential).|MARVEL.				apical protein localization|cell differentiation|central nervous system development|induction of apoptosis|membrane raft polarization|myelination	apical plasma membrane|endoplasmic reticulum|endosome|integral to plasma membrane|membrane raft	apoptotic protease activator activity|channel activity|lipid binding|structural constituent of myelin sheath				0				STAD - Stomach adenocarcinoma(1183;0.18)		ACGGTGGAGAGACTTCCTGGG	0.602													15	28	---	---	---	---	PASS
KCNIP3	30818	broad.mit.edu	37	2	96040136	96040136	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:96040136G>A	uc002sup.2	+	3	389	c.274G>A	c.(274-276)GAG>AAG	p.E92K	KCNIP3_uc002suq.2_Missense_Mutation_p.E66K	NM_013434	NP_038462	Q9Y2W7	CSEN_HUMAN	Kv channel interacting protein 3 isoform 1	92	EF-hand 1; degenerate.				apoptosis|signal transduction|transcription, DNA-dependent	endoplasmic reticulum|Golgi apparatus|nucleus|plasma membrane	calcium ion binding|DNA binding|potassium channel activity|transcription corepressor activity|voltage-gated ion channel activity			breast(2)|ovary(1)	3				READ - Rectum adenocarcinoma(193;0.13)		CACCAAGAAGGAGCTGCAGTC	0.602													12	37	---	---	---	---	PASS
GPAT2	150763	broad.mit.edu	37	2	96690582	96690582	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:96690582C>T	uc002svf.2	-	14	1590	c.1367G>A	c.(1366-1368)GGG>GAG	p.G456E	GPAT2_uc002svd.2_Missense_Mutation_p.G269E|GPAT2_uc002sve.2_Missense_Mutation_p.G258E|GPAT2_uc002svg.2_Missense_Mutation_p.G329E|GPAT2_uc010yuh.1_Missense_Mutation_p.G385E|GPAT2_uc002svh.2_Missense_Mutation_p.G456E	NM_207328	NP_997211	Q6NUI2	GPAT2_HUMAN	glycerol-3-phosphate acyltransferase 2,	456	Helical; (Potential).				glycerol-3-phosphate metabolic process|phospholipid biosynthetic process|triglyceride biosynthetic process	integral to membrane|mitochondrial outer membrane	glycerol-3-phosphate O-acyltransferase activity				0						CGCAGAGCTCCCTACACTGGC	0.617													26	63	---	---	---	---	PASS
ARID5A	10865	broad.mit.edu	37	2	97216904	97216904	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:97216904G>A	uc002swe.2	+	7	739	c.639G>A	c.(637-639)AGG>AGA	p.R213R	ARID5A_uc010yuq.1_Silent_p.R161R|ARID5A_uc002swf.2_Silent_p.R49R|ARID5A_uc002swg.2_Silent_p.R161R	NM_212481	NP_997646	Q03989	ARI5A_HUMAN	AT rich interactive domain 5A	213					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding				0						AGCCCCCCAGGAACAGCACAG	0.587													29	49	---	---	---	---	PASS
ANKRD23	200539	broad.mit.edu	37	2	97505485	97505485	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:97505485G>A	uc002sxa.2	-	8	830	c.801C>T	c.(799-801)GCC>GCT	p.A267A	ANKRD23_uc002sxb.2_RNA|ANKRD23_uc002sxc.2_Silent_p.A225A	NM_144994	NP_659431	Q86SG2	ANR23_HUMAN	diabetes related ankyrin repeat protein	267	ANK 4.					nucleus				ovary(1)	1						CCCCCAGCTCGGCCCCATAGA	0.672													9	17	---	---	---	---	PASS
ZAP70	7535	broad.mit.edu	37	2	98340855	98340855	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:98340855G>A	uc002syd.1	+	3	563	c.356G>A	c.(355-357)CGA>CAA	p.R119Q	ZAP70_uc010yvf.1_Missense_Mutation_p.R119Q|ZAP70_uc002sye.1_5'Flank	NM_001079	NP_001070	P43403	ZAP70_HUMAN	zeta-chain associated protein kinase 70kDa	119	Interdomain A.				immune response|intracellular protein kinase cascade|positive thymic T cell selection|T cell receptor signaling pathway	cytosol|T cell receptor complex	ATP binding|non-membrane spanning protein tyrosine kinase activity			lung(4)|upper_aerodigestive_tract(1)|ovary(1)	6						GACTGCCTGCGAGACGCCATG	0.716													3	1	---	---	---	---	PASS
TMEM131	23505	broad.mit.edu	37	2	98411486	98411486	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:98411486G>A	uc002syh.3	-	29	3522	c.3293C>T	c.(3292-3294)TCC>TTC	p.S1098F		NM_015348	NP_056163	Q92545	TM131_HUMAN	RW1 protein	1098	Helical; (Potential).					integral to membrane				ovary(4)|central_nervous_system(2)	6						GTAAGGAAGGGATGCATTCAA	0.398													12	31	---	---	---	---	PASS
VWA3B	200403	broad.mit.edu	37	2	98846523	98846523	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:98846523G>A	uc002syo.2	+	16	2425	c.2161G>A	c.(2161-2163)GAA>AAA	p.E721K	VWA3B_uc002syk.1_RNA|VWA3B_uc002syl.1_Missense_Mutation_p.E240K|VWA3B_uc002sym.2_Missense_Mutation_p.E721K|VWA3B_uc002syn.1_RNA|VWA3B_uc010yvi.1_Missense_Mutation_p.E378K|VWA3B_uc002syp.1_Missense_Mutation_p.E113K|VWA3B_uc002syq.1_5'UTR|VWA3B_uc002syr.1_Missense_Mutation_p.E38K	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B	721										ovary(3)|large_intestine(2)|skin(1)	6						GCATCAAAAGGAAATCTGTTC	0.358													21	33	---	---	---	---	PASS
VWA3B	200403	broad.mit.edu	37	2	98852942	98852942	+	Splice_Site	SNP	T	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:98852942T>G	uc002syo.2	+	18	2780	c.2516_splice	c.e18+2	p.D839_splice	VWA3B_uc002syk.1_Splice_Site|VWA3B_uc002syl.1_Splice_Site_p.D358_splice|VWA3B_uc002sym.2_Splice_Site_p.D839_splice|VWA3B_uc002syn.1_Splice_Site|VWA3B_uc010yvi.1_Splice_Site_p.D496_splice|VWA3B_uc002syp.1_Splice_Site_p.D231_splice|VWA3B_uc002syq.1_Splice_Site_p.D115_splice|VWA3B_uc002syr.1_Splice_Site_p.D156_splice|VWA3B_uc010fih.1_5'Flank	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B											ovary(3)|large_intestine(2)|skin(1)	6						TGACCACGAGTGAGTTCTTTA	0.428													26	56	---	---	---	---	PASS
VWA3B	200403	broad.mit.edu	37	2	98916627	98916627	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:98916627A>G	uc002syo.2	+	25	3632	c.3368A>G	c.(3367-3369)AAG>AGG	p.K1123R	VWA3B_uc002syn.1_RNA|VWA3B_uc010yvi.1_Missense_Mutation_p.K780R|VWA3B_uc002syp.1_Missense_Mutation_p.K515R|VWA3B_uc002syq.1_Missense_Mutation_p.K399R|VWA3B_uc002syr.1_Missense_Mutation_p.K440R|VWA3B_uc002sys.2_RNA	NM_144992	NP_659429	Q502W6	VWA3B_HUMAN	von Willebrand factor A domain containing 3B	1123										ovary(3)|large_intestine(2)|skin(1)	6						CTTCCCAATAAGCATGTGGCC	0.413													30	48	---	---	---	---	PASS
CNGA3	1261	broad.mit.edu	37	2	98996811	98996811	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:98996811G>A	uc002syt.2	+	4	806	c.389G>A	c.(388-390)GGG>GAG	p.G130E	CNGA3_uc002syu.2_Missense_Mutation_p.G130E|CNGA3_uc010fij.2_Missense_Mutation_p.G134E	NM_001298	NP_001289	Q16281	CNGA3_HUMAN	cyclic nucleotide gated channel alpha 3 isoform	130					signal transduction|visual perception	integral to membrane	cGMP binding			ovary(5)|upper_aerodigestive_tract(1)	6						GCAGACAGAGGGAGAAGGTAA	0.572													8	12	---	---	---	---	PASS
MGAT4A	11320	broad.mit.edu	37	2	99251711	99251711	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:99251711C>T	uc002sze.2	-	14	1756	c.1442G>A	c.(1441-1443)CGA>CAA	p.R481Q	C2orf64_uc002sza.2_Intron|MGAT4A_uc010yvm.1_Missense_Mutation_p.R353Q|MGAT4A_uc010fil.2_Missense_Mutation_p.R235Q	NM_012214	NP_036346	Q9UM21	MGT4A_HUMAN	alpha-1,3-mannosyl-glycoprotein	481	Lumenal (Potential).				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						ATCTTCTAATCGTTTGTCTTT	0.274													13	22	---	---	---	---	PASS
REV1	51455	broad.mit.edu	37	2	100055666	100055666	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:100055666C>T	uc002tad.2	-	6	822	c.610G>A	c.(610-612)GAG>AAG	p.E204K	REV1_uc002tac.2_Missense_Mutation_p.E204K|REV1_uc002tae.1_Missense_Mutation_p.E183K	NM_016316	NP_057400	Q9UBZ9	REV1_HUMAN	REV1-like isoform 1	204					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						GAGGTCTGCTCCAGATCCACA	0.413								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					14	34	---	---	---	---	PASS
AFF3	3899	broad.mit.edu	37	2	100623893	100623893	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:100623893C>T	uc002tag.2	-	5	440	c.204G>A	c.(202-204)CGG>CGA	p.R68R	AFF3_uc002taf.2_Silent_p.R93R|AFF3_uc010fiq.1_Silent_p.R68R|AFF3_uc010yvr.1_Silent_p.R222R|AFF3_uc002tah.1_Silent_p.R93R|AFF3_uc010fir.1_Silent_p.R145R|AFF3_uc002tai.2_5'UTR	NM_002285	NP_002276	P51826	AFF3_HUMAN	AF4/FMR2 family, member 3 isoform 1	68					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						TGTTCTGGATCCGGTTGGAGA	0.433													31	56	---	---	---	---	PASS
NPAS2	4862	broad.mit.edu	37	2	101564694	101564694	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:101564694C>T	uc002tap.1	+						NPAS2_uc010yvt.1_Intron	NM_002518	NP_002509	Q99743	NPAS2_HUMAN	neuronal PAS domain protein 2						central nervous system development|positive regulation of transcription from RNA polymerase II promoter|rhythmic process	transcription factor complex	DNA binding|Hsp90 protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(3)|upper_aerodigestive_tract(1)	4						TTTTCTTTTTCAGTCGGATGT	0.358													12	31	---	---	---	---	PASS
SLC9A4	389015	broad.mit.edu	37	2	103128667	103128667	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:103128667G>A	uc002tbz.3	+	7	1951	c.1494G>A	c.(1492-1494)ATG>ATA	p.M498I		NM_001011552	NP_001011552	Q6AI14	SL9A4_HUMAN	solute carrier family 9 (sodium/hydrogen	498	Cytoplasmic (Potential).				regulation of pH	apical plasma membrane|basolateral plasma membrane|integral to membrane	sodium:hydrogen antiporter activity			skin(2)|central_nervous_system(1)	3						GGCAGCTGATGGATCACTTAA	0.448													29	57	---	---	---	---	PASS
SLC9A2	6549	broad.mit.edu	37	2	103322321	103322321	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:103322321C>T	uc002tca.2	+	11	2136	c.1994C>T	c.(1993-1995)TCC>TTC	p.S665F		NM_003048	NP_003039	Q9UBY0	SL9A2_HUMAN	solute carrier family 9 (sodium/hydrogen	665	Cytoplasmic (Potential).					integral to membrane|plasma membrane	sodium:hydrogen antiporter activity			central_nervous_system(3)|skin(3)|breast(2)	8						ACTTCAACCTCCCGATATTTA	0.308													5	32	---	---	---	---	PASS
FHL2	2274	broad.mit.edu	37	2	106015401	106015401	+	5'Flank	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:106015401G>A	uc002tcu.2	-						FHL2_uc002tdc.2_Intron|FHL2_uc002tdd.2_Intron|FHL2_uc002tcv.2_Intron|FHL2_uc002tcw.2_Intron|FHL2_uc002tcx.2_5'UTR|FHL2_uc010fje.2_5'UTR|FHL2_uc002tcy.2_5'UTR|FHL2_uc002tcz.2_Silent_p.P51P|FHL2_uc002tda.2_RNA|FHL2_uc002tdb.2_Intron|FHL2_uc002tde.1_Silent_p.P51P	NM_201557	NP_963851	Q14192	FHL2_HUMAN	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						CCTCCCTCCGGGGCGCAGGGG	0.751													3	3	---	---	---	---	PASS
ST6GAL2	84620	broad.mit.edu	37	2	107460166	107460166	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:107460166G>A	uc002tdq.2	-	2	387	c.268C>T	c.(268-270)CAT>TAT	p.H90Y	ST6GAL2_uc002tdr.2_Missense_Mutation_p.H90Y|ST6GAL2_uc002tds.3_Missense_Mutation_p.H90Y	NM_001142351	NP_001135823	Q96JF0	SIAT2_HUMAN	ST6 beta-galactosamide	90	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			pancreas(6)|ovary(4)|skin(1)	11						GGCCCCGCATGAAAGGAACCG	0.627													9	31	---	---	---	---	PASS
SULT1C3	442038	broad.mit.edu	37	2	108872116	108872116	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:108872116A>G	uc010ywo.1	+	4	488	c.488A>G	c.(487-489)AAC>AGC	p.N163S		NM_001008743	NP_001008743	Q6IMI6	ST1C3_HUMAN	sulfotransferase family, cytosolic, 1C, member	163						cytoplasm	alcohol sulfotransferase activity			skin(1)	1						GATCCTCAGAACTTAGAGGAA	0.428													22	32	---	---	---	---	PASS
SULT1C2	6819	broad.mit.edu	37	2	108910229	108910229	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:108910229G>A	uc002tdy.2	+	2	559	c.106G>A	c.(106-108)GAG>AAG	p.E36K	SULT1C2_uc010ywp.1_5'UTR|SULT1C2_uc002tdx.2_Missense_Mutation_p.E36K|SULT1C2_uc010ywq.1_Missense_Mutation_p.E36K	NM_001056	NP_001047	O00338	ST1C2_HUMAN	sulfotransferase family, cytosolic, 1C, member 1	36					3'-phosphoadenosine 5'-phosphosulfate metabolic process|amine metabolic process|sulfation|xenobiotic metabolic process	cytosol|microtubule cytoskeleton	sulfotransferase activity			ovary(1)	1						CCAGAGCTTCGAGGCCAAACC	0.557													23	37	---	---	---	---	PASS
SULT1C4	27233	broad.mit.edu	37	2	108998307	108998307	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:108998307C>T	uc002tea.1	+	2	632	c.259C>T	c.(259-261)CCT>TCT	p.P87S	SULT1C4_uc002tdz.2_Missense_Mutation_p.P87S|SULT1C4_uc010ywr.1_RNA|SULT1C4_uc002teb.1_Missense_Mutation_p.P87S	NM_006588	NP_006579	O75897	ST1C4_HUMAN	sulfotransferase family, cytosolic, 1C, member	87					3'-phosphoadenosine 5'-phosphosulfate metabolic process|sulfation|xenobiotic metabolic process	cytosol	sulfotransferase activity				0						TCAACGATTTCCTTTCCTCGA	0.403													20	37	---	---	---	---	PASS
POLR1B	84172	broad.mit.edu	37	2	113304673	113304673	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:113304673C>T	uc002thw.2	+	2	842	c.262C>T	c.(262-264)CCA>TCA	p.P88S	POLR1B_uc010fkn.2_Intron|POLR1B_uc002thx.2_5'UTR|POLR1B_uc010fko.2_Missense_Mutation_p.P88S|POLR1B_uc010fkp.2_Intron|POLR1B_uc010yxn.1_Missense_Mutation_p.P126S|POLR1B_uc002thy.2_5'UTR|POLR1B_uc010yxo.1_Intron	NM_019014	NP_061887	Q9H9Y6	RPA2_HUMAN	RNA polymerase I polypeptide B isoform 1	88					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						ACCTACAGTTCCAAAAGGGAC	0.453													29	43	---	---	---	---	PASS
POLR1B	84172	broad.mit.edu	37	2	113308538	113308538	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:113308538C>T	uc002thw.2	+	5	1301	c.721C>T	c.(721-723)CGA>TGA	p.R241*	POLR1B_uc010fkn.2_Nonsense_Mutation_p.R185*|POLR1B_uc002thx.2_Nonsense_Mutation_p.R102*|POLR1B_uc010fko.2_Nonsense_Mutation_p.R241*|POLR1B_uc010fkp.2_Intron|POLR1B_uc010yxn.1_Nonsense_Mutation_p.R279*|POLR1B_uc002thy.2_Nonsense_Mutation_p.R102*|POLR1B_uc010yxo.1_Nonsense_Mutation_p.R18*	NM_019014	NP_061887	Q9H9Y6	RPA2_HUMAN	RNA polymerase I polypeptide B isoform 1	241					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						CTTTATTTACCGAAAAGAACT	0.378													16	70	---	---	---	---	PASS
IL1B	3553	broad.mit.edu	37	2	113590232	113590232	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:113590232C>T	uc002tii.1	-						IL1B_uc002tih.1_Intron	NM_000576	NP_000567	P01584	IL1B_HUMAN	interleukin 1, beta proprotein						activation of MAPK activity|anti-apoptosis|apoptosis|cell-cell signaling|cellular response to drug|cellular response to mechanical stimulus|cytokine-mediated signaling pathway|embryo implantation|fever generation|negative regulation of adiponectin secretion|negative regulation of cell proliferation|negative regulation of glucose transport|negative regulation of insulin receptor signaling pathway|negative regulation of lipid catabolic process|negative regulation of MAP kinase activity|positive regulation of angiogenesis|positive regulation of calcidiol 1-monooxygenase activity|positive regulation of cell adhesion molecule production|positive regulation of cell division|positive regulation of fever generation|positive regulation of granulocyte macrophage colony-stimulating factor production|positive regulation of heterotypic cell-cell adhesion|positive regulation of histone acetylation|positive regulation of histone phosphorylation|positive regulation of interferon-gamma production|positive regulation of interleukin-2 biosynthetic process|positive regulation of interleukin-6 production|positive regulation of interleukin-8 production|positive regulation of lipid catabolic process|positive regulation of membrane protein ectodomain proteolysis|positive regulation of mitosis|positive regulation of monocyte chemotactic protein-1 production|positive regulation of myosin light chain kinase activity|positive regulation of NF-kappaB import into nucleus|positive regulation of NF-kappaB transcription factor activity|positive regulation of nitric oxide biosynthetic process|positive regulation of prostaglandin secretion|positive regulation of protein export from nucleus|positive regulation of T cell proliferation|positive regulation vascular endothelial growth factor production|regulation of insulin secretion|sequestering of triglyceride|smooth muscle adaptation	cytosol|extracellular space	cytokine activity|growth factor activity|interleukin-1 receptor binding|protein domain specific binding			lung(3)|breast(1)	4					Anakinra(DB00026)|Minocycline(DB01017)|Procaterol(DB01366)	AGGATGTTTCCATTTACCTTG	0.453													17	38	---	---	---	---	PASS
PAX8	7849	broad.mit.edu	37	2	113977710	113977710	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:113977710G>A	uc010yxt.1	-	11	1401	c.1235C>T	c.(1234-1236)TCC>TTC	p.S412F	PAX8_uc010yxu.1_Missense_Mutation_p.P386S|PAX8_uc010yxv.1_Missense_Mutation_p.S349F|PAX8_uc002tjm.2_Missense_Mutation_p.P309S|PAX8_uc002tjn.2_Missense_Mutation_p.P275S	NM_003466	NP_003457	Q06710	PAX8_HUMAN	paired box 8 isoform PAX8A	412					branching involved in ureteric bud morphogenesis|cellular response to gonadotropin stimulus|central nervous system development|mesenchymal to epithelial transition involved in metanephros morphogenesis|mesonephros development|metanephric collecting duct development|metanephric comma-shaped body morphogenesis|metanephric distal convoluted tubule development|metanephric nephron tubule formation|metanephric S-shaped body morphogenesis|negative regulation of mesenchymal stem cell apoptosis involved in metanephric nephron morphogenesis|otic vesicle development|positive regulation of branching involved in ureteric bud morphogenesis|positive regulation of mesenchymal to epithelial transition involved in metanephros morphogenesis|positive regulation of metanephric DCT cell differentiation|positive regulation of thyroid hormone generation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription, DNA-dependent|pronephric field specification|regulation of metanephric nephron tubule epithelial cell differentiation|regulation of thyroid-stimulating hormone secretion|thyroid gland development|transcription, DNA-dependent	nucleoplasm	protein binding|RNA polymerase II core promoter sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|thyroid-stimulating hormone receptor activity			ovary(1)|lung(1)	2						CTCGCTGTAGGAGGAGTAGGG	0.627			T	PPARG	follicular thyroid		Thyroid dysgenesis 						7	11	---	---	---	---	PASS
RABL2A	11159	broad.mit.edu	37	2	114399678	114399678	+	Missense_Mutation	SNP	C	T	T	rs141631881		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:114399678C>T	uc002tkn.3	+	9	873	c.659C>T	c.(658-660)TCA>TTA	p.S220L	RABL2A_uc010flb.2_Missense_Mutation_p.S220L|RABL2A_uc002tkl.3_Missense_Mutation_p.S139L|RABL2A_uc002tkm.3_Missense_Mutation_p.S157L|RABL2A_uc002tks.3_Missense_Mutation_p.S221L|RABL2A_uc002tkr.2_Missense_Mutation_p.S221L|RABL2A_uc002tkp.3_Missense_Mutation_p.S221L	NM_007082	NP_009013	Q9UBK7	RBL2A_HUMAN	RAB, member of RAS oncogene family-like 2A	220					small GTPase mediated signal transduction		GTP binding|GTPase activity			skin(1)	1						GAGACCCCATCAGAGGAGGTG	0.587													8	22	---	---	---	---	PASS
DPP10	57628	broad.mit.edu	37	2	116520145	116520145	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:116520145C>T	uc002tla.1	+						DPP10_uc002tlb.1_Intron|DPP10_uc002tlc.1_Intron|DPP10_uc002tle.2_Intron|DPP10_uc002tlf.1_Intron	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	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						TGTTTTGTTTCAGAAATATGA	0.363													27	64	---	---	---	---	PASS
DPP10	57628	broad.mit.edu	37	2	116535395	116535395	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:116535395G>A	uc002tla.1	+	15	1803	c.1346G>A	c.(1345-1347)GGA>GAA	p.G449E	DPP10_uc002tlb.1_Missense_Mutation_p.G399E|DPP10_uc002tlc.1_Missense_Mutation_p.G445E|DPP10_uc002tle.2_Missense_Mutation_p.G453E|DPP10_uc002tlf.1_Missense_Mutation_p.G442E	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	449	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						TCTCCCAGAGGAAGGCAGCTG	0.403													28	28	---	---	---	---	PASS
DPP10	57628	broad.mit.edu	37	2	116548737	116548737	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:116548737C>T	uc002tla.1	+	18	2069	c.1612C>T	c.(1612-1614)CTT>TTT	p.L538F	DPP10_uc002tlb.1_Missense_Mutation_p.L488F|DPP10_uc002tlc.1_Missense_Mutation_p.L534F|DPP10_uc002tle.2_Missense_Mutation_p.L542F|DPP10_uc002tlf.1_Missense_Mutation_p.L531F	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	538	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						AATTAAAATCCTTCATATTGA	0.338													12	24	---	---	---	---	PASS
DPP10	57628	broad.mit.edu	37	2	116548746	116548746	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:116548746G>A	uc002tla.1	+	18	2078	c.1621G>A	c.(1621-1623)GAC>AAC	p.D541N	DPP10_uc002tlb.1_Missense_Mutation_p.D491N|DPP10_uc002tlc.1_Missense_Mutation_p.D537N|DPP10_uc002tle.2_Missense_Mutation_p.D545N|DPP10_uc002tlf.1_Missense_Mutation_p.D534N	NM_020868	NP_065919	Q8N608	DPP10_HUMAN	dipeptidyl peptidase 10 isoform long	541	Extracellular (Potential).				proteolysis	integral to membrane|membrane fraction	serine-type peptidase activity			ovary(5)|large_intestine(2)|skin(2)|breast(1)	10						CCTTCATATTGACGACTATGG	0.318													10	24	---	---	---	---	PASS
MARCO	8685	broad.mit.edu	37	2	119750054	119750054	+	Splice_Site	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:119750054T>C	uc002tln.1	+	15	1384	c.1252_splice	c.e15+2	p.G418_splice	MARCO_uc010yyf.1_Splice_Site_p.G340_splice	NM_006770	NP_006761	Q9UEW3	MARCO_HUMAN	macrophage receptor with collagenous structure						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						GTGAAAGAGGTAATCACTATT	0.408													18	29	---	---	---	---	PASS
PTPN4	5775	broad.mit.edu	37	2	120684190	120684190	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:120684190C>T	uc002tmf.1	+	13	1789	c.1018C>T	c.(1018-1020)CAA>TAA	p.Q340*	PTPN4_uc010flj.1_Nonsense_Mutation_p.Q53*	NM_002830	NP_002821	P29074	PTN4_HUMAN	protein tyrosine phosphatase, non-receptor type	340						cytoplasm|cytoskeleton|internal side of plasma membrane	cytoskeletal protein binding|non-membrane spanning protein tyrosine phosphatase activity			ovary(2)	2					Alendronate(DB00630)	AACTGAAGTCCAATCAGTTCA	0.299													34	60	---	---	---	---	PASS
GLI2	2736	broad.mit.edu	37	2	121712845	121712845	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:121712845G>A	uc010flp.2	+	4	512	c.482G>A	c.(481-483)AGG>AAG	p.R161K	GLI2_uc002tmq.1_Intron|GLI2_uc002tmr.1_Intron|GLI2_uc002tmt.3_Intron|GLI2_uc002tmu.3_Intron|GLI2_uc002tmv.1_Intron|GLI2_uc010flo.1_Missense_Mutation_p.R36K|GLI2_uc002tmw.1_Missense_Mutation_p.R161K	NM_005270	NP_005261	P10070	GLI2_HUMAN	GLI-Kruppel family member GLI2	161					axon guidance|branching morphogenesis of a tube|cell proliferation|cerebellar cortex morphogenesis|developmental growth|embryonic digestive tract development|epidermal cell differentiation|floor plate formation|heart development|hindgut morphogenesis|kidney development|lung development|negative regulation of transcription from RNA polymerase II promoter|odontogenesis of dentine-containing tooth|osteoblast development|osteoblast differentiation|pituitary gland development|positive regulation of DNA replication|positive regulation of T cell differentiation in thymus|positive regulation of transcription from RNA polymerase II promoter|proximal/distal pattern formation|skeletal system development|smoothened signaling pathway involved in ventral spinal cord interneuron specification|spinal cord ventral commissure morphogenesis	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|lung(2)|breast(1)|central_nervous_system(1)|pancreas(1)	13	Renal(3;0.0496)	Prostate(154;0.0623)				CTTAAGGAGAGGGGACTGTTT	0.597													17	20	---	---	---	---	PASS
GLI2	2736	broad.mit.edu	37	2	121712846	121712846	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:121712846G>A	uc010flp.2	+	4	513	c.483G>A	c.(481-483)AGG>AGA	p.R161R	GLI2_uc002tmq.1_Intron|GLI2_uc002tmr.1_Intron|GLI2_uc002tmt.3_Intron|GLI2_uc002tmu.3_Intron|GLI2_uc002tmv.1_Intron|GLI2_uc010flo.1_Silent_p.R36R|GLI2_uc002tmw.1_Silent_p.R161R	NM_005270	NP_005261	P10070	GLI2_HUMAN	GLI-Kruppel family member GLI2	161					axon guidance|branching morphogenesis of a tube|cell proliferation|cerebellar cortex morphogenesis|developmental growth|embryonic digestive tract development|epidermal cell differentiation|floor plate formation|heart development|hindgut morphogenesis|kidney development|lung development|negative regulation of transcription from RNA polymerase II promoter|odontogenesis of dentine-containing tooth|osteoblast development|osteoblast differentiation|pituitary gland development|positive regulation of DNA replication|positive regulation of T cell differentiation in thymus|positive regulation of transcription from RNA polymerase II promoter|proximal/distal pattern formation|skeletal system development|smoothened signaling pathway involved in ventral spinal cord interneuron specification|spinal cord ventral commissure morphogenesis	nucleus|nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(8)|lung(2)|breast(1)|central_nervous_system(1)|pancreas(1)	13	Renal(3;0.0496)	Prostate(154;0.0623)				TTAAGGAGAGGGGACTGTTTG	0.597													17	20	---	---	---	---	PASS
GPR17	2840	broad.mit.edu	37	2	128408678	128408678	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:128408678C>T	uc010yzn.1	+	4	1064	c.453C>T	c.(451-453)ACC>ACT	p.T151T	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.T151T|GPR17_uc010yzo.1_Silent_p.T123T|GPR17_uc002tpd.2_Silent_p.T123T	NM_001161415	NP_001154887	Q13304	GPR17_HUMAN	G protein-coupled receptor 17 isoform a	151	Helical; Name=3; (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)		ACTTCCTCACCTGCATCAGCG	0.597													29	45	---	---	---	---	PASS
WDR33	55339	broad.mit.edu	37	2	128526523	128526523	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:128526523G>A	uc002tpg.1	-	3	440	c.257C>T	c.(256-258)GCA>GTA	p.A86V	WDR33_uc002tph.1_Missense_Mutation_p.A86V|WDR33_uc002tpi.1_Missense_Mutation_p.A86V	NM_018383	NP_060853	Q9C0J8	WDR33_HUMAN	WD repeat domain 33 isoform 1	86					postreplication repair|spermatogenesis	collagen|nucleus	protein binding				0	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.0695)		GTAATAACCTGCATCAGGCTG	0.303													17	46	---	---	---	---	PASS
HS6ST1	9394	broad.mit.edu	37	2	129026283	129026283	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:129026283C>T	uc002tpt.3	-	2	723	c.689G>A	c.(688-690)TGG>TAG	p.W230*		NM_004807	NP_004798	O60243	H6ST1_HUMAN	heparan sulfate 6-O-sulfotransferase 1	230	Lumenal (Potential).				heparan sulfate proteoglycan biosynthetic process, enzymatic modification	integral to plasma membrane	sulfotransferase activity			pancreas(1)	1	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.117)		GCAGCCCGACCAGTCCGTGCC	0.652													14	19	---	---	---	---	PASS
HS6ST1	9394	broad.mit.edu	37	2	129026451	129026451	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:129026451G>A	uc002tpt.3	-							NM_004807	NP_004798	O60243	H6ST1_HUMAN	heparan sulfate 6-O-sulfotransferase 1						heparan sulfate proteoglycan biosynthetic process, enzymatic modification	integral to plasma membrane	sulfotransferase activity			pancreas(1)	1	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.117)		CTTCCTGCAAGGAGACGGGGA	0.622													7	16	---	---	---	---	PASS
TUBA3E	112714	broad.mit.edu	37	2	130949436	130949436	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:130949436C>T	uc002tqv.2	-	5	1422	c.1321G>A	c.(1321-1323)GAA>AAA	p.E441K		NM_207312	NP_997195	Q6PEY2	TBA3E_HUMAN	tubulin, alpha 3e	441					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1	Colorectal(110;0.1)					GCCTCAGCTTCCACGGAATCC	0.567													27	45	---	---	---	---	PASS
TUBA3E	112714	broad.mit.edu	37	2	130949526	130949526	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:130949526C>T	uc002tqv.2	-	5	1332	c.1231G>A	c.(1231-1233)GAA>AAA	p.E411K		NM_207312	NP_997195	Q6PEY2	TBA3E_HUMAN	tubulin, alpha 3e	411					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1	Colorectal(110;0.1)					TCCATGCCTTCGCCCACGTAC	0.602													41	65	---	---	---	---	PASS
FAM123C	205147	broad.mit.edu	37	2	131520089	131520089	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:131520089G>A	uc002trw.2	+	2	634	c.444G>A	c.(442-444)AGG>AGA	p.R148R	FAM123C_uc010fmv.2_Silent_p.R148R|FAM123C_uc010fms.1_Silent_p.R148R|FAM123C_uc010fmt.1_Silent_p.R148R|FAM123C_uc010fmu.1_Silent_p.R148R	NM_152698	NP_689911	Q8N944	F123C_HUMAN	hypothetical protein LOC205147	148										pancreas(2)|ovary(1)	3	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.13)		GCATCCCGAGGAAGAGGATTT	0.607													21	39	---	---	---	---	PASS
FAM123C	205147	broad.mit.edu	37	2	131521887	131521887	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:131521887C>T	uc002trw.2	+	2	2432	c.2242C>T	c.(2242-2244)CGT>TGT	p.R748C	FAM123C_uc010fmv.2_Missense_Mutation_p.R748C|FAM123C_uc010fms.1_Missense_Mutation_p.R748C|FAM123C_uc010fmt.1_Missense_Mutation_p.R748C|FAM123C_uc010fmu.1_Missense_Mutation_p.R748C	NM_152698	NP_689911	Q8N944	F123C_HUMAN	hypothetical protein LOC205147	748										pancreas(2)|ovary(1)	3	Colorectal(110;0.1)			BRCA - Breast invasive adenocarcinoma(221;0.13)		GTGTCGAGATCGTGTCCAGGA	0.632													11	21	---	---	---	---	PASS
POTEE	445582	broad.mit.edu	37	2	132021837	132021837	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:132021837G>A	uc002tsn.2	+	15	2861	c.2809G>A	c.(2809-2811)GAG>AAG	p.E937K	PLEKHB2_uc002tsh.2_Intron|POTEE_uc002tsk.2_Missense_Mutation_p.E537K|POTEE_uc002tsl.2_Missense_Mutation_p.E519K|POTEE_uc010fmy.1_Missense_Mutation_p.E401K	NM_001083538	NP_001077007	Q6S8J3	POTEE_HUMAN	protein expressed in prostate, ovary, testis,	937	Actin-like.						ATP binding				0						CTCCTCCCTAGAGAAGAGCTA	0.627													7	157	---	---	---	---	PASS
NCKAP5	344148	broad.mit.edu	37	2	133541729	133541729	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:133541729G>A	uc002ttp.2	-	14	3029	c.2655C>T	c.(2653-2655)GTC>GTT	p.V885V	NCKAP5_uc002ttq.2_Intron	NM_207363	NP_997246	O14513	NCKP5_HUMAN	Nck-associated protein 5 isoform 1	885							protein binding				0						TGGGGCACTGGACCCAGTCCC	0.582													24	38	---	---	---	---	PASS
MGAT5	4249	broad.mit.edu	37	2	135012198	135012198	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:135012198G>T	uc002ttv.1	+	1	369	c.224G>T	c.(223-225)GGA>GTA	p.G75V		NM_002410	NP_002401	Q09328	MGT5A_HUMAN	N-acetylglucosaminyltransferase V	75	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)		CCATACGCTGGAGTCATGACA	0.517													15	47	---	---	---	---	PASS
MGAT5	4249	broad.mit.edu	37	2	135075138	135075138	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:135075138C>T	uc002ttv.1	+	3	590	c.445C>T	c.(445-447)CCT>TCT	p.P149S		NM_002410	NP_002401	Q09328	MGT5A_HUMAN	N-acetylglucosaminyltransferase V	149	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)		TGTATTGCCTCCTATGGACGG	0.418													13	15	---	---	---	---	PASS
MGAT5	4249	broad.mit.edu	37	2	135075139	135075139	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:135075139C>T	uc002ttv.1	+	3	591	c.446C>T	c.(445-447)CCT>CTT	p.P149L		NM_002410	NP_002401	Q09328	MGT5A_HUMAN	N-acetylglucosaminyltransferase V	149	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)		GTATTGCCTCCTATGGACGGC	0.418													13	15	---	---	---	---	PASS
YSK4	80122	broad.mit.edu	37	2	135745407	135745407	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:135745407C>T	uc002tue.1	-	7	1066	c.1035G>A	c.(1033-1035)AGG>AGA	p.R345R	YSK4_uc002tuf.1_Intron|YSK4_uc010fnc.1_Intron|YSK4_uc010fnd.1_Silent_p.R232R|YSK4_uc010zbg.1_Intron|YSK4_uc002tuh.3_Silent_p.R73R|YSK4_uc002tui.3_Silent_p.R362R	NM_025052	NP_079328	Q56UN5	YSK4_HUMAN	Yeast Sps1/Ste20-related kinase 4 isoform 1	345							ATP binding|protein serine/threonine kinase activity			stomach(2)|urinary_tract(1)|ovary(1)|breast(1)	5				BRCA - Breast invasive adenocarcinoma(221;0.112)		TATCCTCTTCCCTAACTGCAG	0.363													9	19	---	---	---	---	PASS
ZRANB3	84083	broad.mit.edu	37	2	135966512	135966512	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:135966512C>T	uc002tum.2	-	18	2649	c.2532G>A	c.(2530-2532)ATG>ATA	p.M844I	ZRANB3_uc002tuk.2_Missense_Mutation_p.M387I|ZRANB3_uc002tul.2_Missense_Mutation_p.M842I	NM_032143	NP_115519	Q5FWF4	ZRAB3_HUMAN	zinc finger, RAN-binding domain containing 3	844						intracellular	ATP binding|DNA binding|endonuclease activity|helicase activity|zinc ion binding			lung(2)	2				BRCA - Breast invasive adenocarcinoma(221;0.135)		TCACTTTGTCCATTGAGGCTA	0.383													20	38	---	---	---	---	PASS
DARS	1615	broad.mit.edu	37	2	136701011	136701011	+	Silent	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:136701011C>A	uc002tux.1	-	5	544	c.360G>T	c.(358-360)GTG>GTT	p.V120V	DARS_uc010fnj.1_Silent_p.V20V	NM_001349	NP_001340	P14868	SYDC_HUMAN	aspartyl-tRNA synthetase	120					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)	TCACTTTTCTCACAACACCTT	0.368													29	70	---	---	---	---	PASS
THSD7B	80731	broad.mit.edu	37	2	138208412	138208412	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:138208412C>T	uc002tva.1	+						THSD7B_uc010zbj.1_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)		CTTTTTCTGTCAGGTTACATT	0.353													12	26	---	---	---	---	PASS
THSD7B	80731	broad.mit.edu	37	2	138330102	138330102	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:138330102G>A	uc002tva.1	+	16	3312	c.3312G>A	c.(3310-3312)TGG>TGA	p.W1104*	THSD7B_uc010zbj.1_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)		TGTCTGAGTGGGGACTTTGGA	0.463													15	38	---	---	---	---	PASS
LRP1B	53353	broad.mit.edu	37	2	141110517	141110517	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:141110517C>T	uc002tvj.1	-							NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	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)		TGGTTATAATCTTACCTTCTG	0.313										TSP Lung(27;0.18)			17	43	---	---	---	---	PASS
LRP1B	53353	broad.mit.edu	37	2	141143587	141143587	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:141143587G>A	uc002tvj.1	-							NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	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)		ATCTGTAATGGAAAGAACCAG	0.413										TSP Lung(27;0.18)			22	47	---	---	---	---	PASS
LRP1B	53353	broad.mit.edu	37	2	141607685	141607685	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:141607685G>A	uc002tvj.1	-	29	5897	c.4925C>T	c.(4924-4926)ACT>ATT	p.T1642I	LRP1B_uc010fnl.1_Missense_Mutation_p.T824I	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1642	Extracellular (Potential).|LDL-receptor class B 14.				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)		TGAAATAACAGTTTCTAACCC	0.303										TSP Lung(27;0.18)			20	40	---	---	---	---	PASS
LRP1B	53353	broad.mit.edu	37	2	141665470	141665470	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:141665470C>T	uc002tvj.1	-	22	4468	c.3496G>A	c.(3496-3498)GGC>AGC	p.G1166S	LRP1B_uc010fnl.1_Missense_Mutation_p.G348S	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	low density lipoprotein-related protein 1B	1166	Extracellular (Potential).|LDL-receptor class A 10.				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)		TCATCAGAGCCATCAGGACAA	0.428										TSP Lung(27;0.18)			36	111	---	---	---	---	PASS
LRP1B	53353	broad.mit.edu	37	2	141665652	141665652	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:141665652G>A	uc002tvj.1	-						LRP1B_uc010fnl.1_Intron	NM_018557	NP_061027	Q9NZR2	LRP1B_HUMAN	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)		TCTCCCTTAAGAAAACAGAAA	0.388										TSP Lung(27;0.18)			6	22	---	---	---	---	PASS
GTDC1	79712	broad.mit.edu	37	2	144903180	144903180	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:144903180C>T	uc002tvp.2	-	5	585	c.306G>A	c.(304-306)CAG>CAA	p.Q102Q	GTDC1_uc002tvo.2_Silent_p.Q102Q|GTDC1_uc002tvq.2_Silent_p.Q102Q|GTDC1_uc002tvr.2_Silent_p.Q102Q|GTDC1_uc010fnn.2_Silent_p.Q102Q|GTDC1_uc002tvs.2_Silent_p.Q70Q|GTDC1_uc010fno.2_5'UTR|GTDC1_uc002tvt.1_Silent_p.Q102Q	NM_001006636	NP_001006637	Q4AE62	GTDC1_HUMAN	glycosyltransferase-like domain containing 1	102					biosynthetic process		transferase activity, transferring glycosyl groups			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(221;0.0914)		AATCCCTCTCCTGACATTTCT	0.413													21	31	---	---	---	---	PASS
ACVR2A	92	broad.mit.edu	37	2	148672787	148672787	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:148672787T>A	uc002twg.2	+	6	825	c.556T>A	c.(556-558)TTA>ATA	p.L186I	ACVR2A_uc010zbn.1_Missense_Mutation_p.L78I|ACVR2A_uc002twh.2_Missense_Mutation_p.L186I	NM_001616	NP_001607	P27037	AVR2A_HUMAN	activin A receptor, type IIA precursor	186	Cytoplasmic (Potential).				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)		ACCTTCTCCATTACTAGGTTT	0.393													19	42	---	---	---	---	PASS
NEB	4703	broad.mit.edu	37	2	152348670	152348670	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:152348670C>T	uc010fnx.2	-	145	19622	c.19431G>A	c.(19429-19431)CAG>CAA	p.Q6477Q	NEB_uc002txr.2_Silent_p.Q2807Q|RIF1_uc002txp.2_Intron|NEB_uc010zbz.1_Silent_p.Q246Q|NEB_uc002txq.2_Silent_p.Q356Q|NEB_uc010zca.1_Silent_p.Q308Q|NEB_uc010zcb.1_Silent_p.Q246Q	NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	6477	Nebulin 178.|Interaction with SVIL.				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)		CCACTTTCCTCTGAATACCTC	0.443													36	106	---	---	---	---	PASS
NEB	4703	broad.mit.edu	37	2	152582017	152582017	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:152582017C>T	uc010fnx.2	-	6	543	c.352G>A	c.(352-354)GAT>AAT	p.D118N		NM_004543	NP_004534	P20929	NEBU_HUMAN	nebulin isoform 3	118	Nebulin 2.				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)		TCTGGAGTATCTGTTGTGCTG	0.388													30	79	---	---	---	---	PASS
PRPF40A	55660	broad.mit.edu	37	2	153515797	153515797	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:153515797G>A	uc002tyh.3	-	22	2418	c.2396C>T	c.(2395-2397)TCC>TTC	p.S799F	PRPF40A_uc002tyg.3_Missense_Mutation_p.S255F|PRPF40A_uc010zcd.1_Missense_Mutation_p.S750F	NM_017892	NP_060362	O75400	PR40A_HUMAN	formin binding protein 3	826					mRNA processing|RNA splicing	nuclear matrix|nuclear speck	protein binding				0						TCGAGAGCGGGAACGTTTCCT	0.328													9	19	---	---	---	---	PASS
GALNT13	114805	broad.mit.edu	37	2	155102469	155102469	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:155102469G>A	uc002tyr.3	+	7	1398	c.831G>A	c.(829-831)AGG>AGA	p.R277R	GALNT13_uc002tyt.3_Silent_p.R277R|GALNT13_uc010foc.1_Silent_p.R96R|GALNT13_uc010fod.2_Silent_p.R30R	NM_052917	NP_443149	Q8IUC8	GLT13_HUMAN	UDP-N-acetyl-alpha-D-galactosamine:polypeptide	277	Lumenal (Potential).					Golgi membrane|integral to membrane	polypeptide N-acetylgalactosaminyltransferase activity|sugar binding			ovary(2)|pancreas(2)|central_nervous_system(1)|skin(1)	6						TGGACAGGAGGAAAGGAGACA	0.378													11	34	---	---	---	---	PASS
PKP4	8502	broad.mit.edu	37	2	159519805	159519805	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:159519805C>T	uc002tzv.2	+	15	2685	c.2425C>T	c.(2425-2427)CCA>TCA	p.P809S	PKP4_uc002tzu.2_Missense_Mutation_p.P809S|PKP4_uc002tzw.2_Missense_Mutation_p.P809S|PKP4_uc002tzx.2_Missense_Mutation_p.P466S|PKP4_uc002uaa.2_Missense_Mutation_p.P661S|uc002uab.1_Intron|PKP4_uc002uac.2_5'UTR	NM_003628	NP_003619	Q99569	PKP4_HUMAN	plakophilin 4 isoform a	809					cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7						TGGTCCTATCCCAGGACTGTC	0.488										HNSCC(62;0.18)			14	28	---	---	---	---	PASS
TANC1	85461	broad.mit.edu	37	2	160035121	160035121	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:160035121A>T	uc002uag.2	+	14	2231	c.1957A>T	c.(1957-1959)AAC>TAC	p.N653Y	TANC1_uc010fol.1_Missense_Mutation_p.N547Y|TANC1_uc010zcm.1_Missense_Mutation_p.N645Y|TANC1_uc010fom.1_Missense_Mutation_p.N459Y|TANC1_uc002uai.1_RNA	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and	653						cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						CTTCCCAGACAACAAAGACAT	0.512													17	42	---	---	---	---	PASS
TANC1	85461	broad.mit.edu	37	2	160035487	160035487	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:160035487C>T	uc002uag.2	+	14	2597	c.2323C>T	c.(2323-2325)CAG>TAG	p.Q775*	TANC1_uc010fol.1_Nonsense_Mutation_p.Q669*|TANC1_uc010zcm.1_Nonsense_Mutation_p.Q767*|TANC1_uc010fom.1_Nonsense_Mutation_p.Q581*|TANC1_uc002uai.1_RNA	NM_033394	NP_203752	Q9C0D5	TANC1_HUMAN	tetratricopeptide repeat, ankyrin repeat and	775						cell junction|postsynaptic density|postsynaptic membrane	binding			ovary(2)|central_nervous_system(1)	3						GCAGATCTTTCAGGCTATTAA	0.552													49	103	---	---	---	---	PASS
BAZ2B	29994	broad.mit.edu	37	2	160287383	160287383	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:160287383G>A	uc002uao.2	-	10	2537	c.2185C>T	c.(2185-2187)CCA>TCA	p.P729S	BAZ2B_uc002uap.2_Missense_Mutation_p.P727S|BAZ2B_uc002uaq.1_Intron|BAZ2B_uc002uar.1_Missense_Mutation_p.P302S	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	bromodomain adjacent to zinc finger domain, 2B	729					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			ovary(3)|skin(1)	4						CCAGAGTGTGGGCTTGAAGTA	0.408													19	52	---	---	---	---	PASS
TBR1	10716	broad.mit.edu	37	2	162274740	162274740	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:162274740C>T	uc002ubw.1	+	3	1178	c.876C>T	c.(874-876)TCC>TCT	p.S292S	TBR1_uc010foy.2_Silent_p.S5S	NM_006593	NP_006584	Q16650	TBR1_HUMAN	T-box, brain, 1	292	T-box.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)|central_nervous_system(1)	2						ATCCGGATTCCCCCAACACTG	0.463													14	38	---	---	---	---	PASS
KCNH7	90134	broad.mit.edu	37	2	163291736	163291736	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:163291736G>A	uc002uch.1	-	8	2138	c.1926C>T	c.(1924-1926)ATC>ATT	p.I642I	KCNH7_uc002uci.2_Silent_p.I635I	NM_033272	NP_150375	Q9NS40	KCNH7_HUMAN	potassium voltage-gated channel, subfamily H,	642	Helical; Name=Segment S6; (Potential).				regulation of transcription, DNA-dependent	integral to membrane	protein binding|signal transducer activity			ovary(3)|skin(2)	5					Ibutilide(DB00308)	AAATTGAAAAGATTTTCTCCG	0.333													12	31	---	---	---	---	PASS
FIGN	55137	broad.mit.edu	37	2	164466956	164466956	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:164466956C>T	uc002uck.1	-	3	1697	c.1386G>A	c.(1384-1386)AAG>AAA	p.K462K		NM_018086	NP_060556	Q5HY92	FIGN_HUMAN	fidgetin	462						nuclear matrix	ATP binding|nucleoside-triphosphatase activity			large_intestine(2)|ovary(1)|skin(1)	4						TGTCAGTATTCTTCAGTTGCT	0.552													11	30	---	---	---	---	PASS
FIGN	55137	broad.mit.edu	37	2	164468023	164468023	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:164468023C>T	uc002uck.1	-	3	630	c.319G>A	c.(319-321)GAA>AAA	p.E107K		NM_018086	NP_060556	Q5HY92	FIGN_HUMAN	fidgetin	107						nuclear matrix	ATP binding|nucleoside-triphosphatase activity			large_intestine(2)|ovary(1)|skin(1)	4						TGCCAGGGTTCACTTTCATTT	0.502													37	72	---	---	---	---	PASS
COBLL1	22837	broad.mit.edu	37	2	165557159	165557159	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:165557159G>A	uc010zcw.1	-	13	1772	c.1648C>T	c.(1648-1650)CCT>TCT	p.P550S	COBLL1_uc002ucp.2_Missense_Mutation_p.P484S|COBLL1_uc002ucq.2_Missense_Mutation_p.P445S|COBLL1_uc010zcx.1_Missense_Mutation_p.P491S|COBLL1_uc002ucs.1_RNA|COBLL1_uc002ucn.2_5'Flank|COBLL1_uc002uco.2_Missense_Mutation_p.P214S	NM_014900	NP_055715	Q53SF7	COBL1_HUMAN	COBL-like 1	522										ovary(2)|pancreas(1)	3						GATACAAAAGGAATATCTTGT	0.368													33	69	---	---	---	---	PASS
SCN2A	6326	broad.mit.edu	37	2	166152501	166152501	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:166152501G>A	uc002udc.2	+	2	458	c.168G>A	c.(166-168)TTG>TTA	p.L56L	SCN2A_uc002udd.2_Silent_p.L56L|SCN2A_uc002ude.2_Silent_p.L56L	NM_001040142	NP_001035232	Q99250	SCN2A_HUMAN	sodium channel, voltage-gated, type II, alpha	56					myelination	node of Ranvier|voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|breast(1)|pancreas(1)	8					Lamotrigine(DB00555)	ACAGTGACTTGGAAGCAGGAA	0.448													11	26	---	---	---	---	PASS
CSRNP3	80034	broad.mit.edu	37	2	166514360	166514360	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:166514360G>A	uc002udf.2	+	5	614	c.238G>A	c.(238-240)GGC>AGC	p.G80S	CSRNP3_uc002udg.2_Missense_Mutation_p.G80S	NM_024969	NP_079245	Q8WYN3	CSRN3_HUMAN	cysteine-serine-rich nuclear protein 3	80					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						CAGGAGGCAAGGCTTCACAAG	0.517													21	27	---	---	---	---	PASS
CSRNP3	80034	broad.mit.edu	37	2	166535936	166535936	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:166535936C>T	uc002udf.2	+	7	1807	c.1431C>T	c.(1429-1431)TTC>TTT	p.F477F	CSRNP3_uc002udg.2_Silent_p.F477F	NM_024969	NP_079245	Q8WYN3	CSRN3_HUMAN	cysteine-serine-rich nuclear protein 3	477					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						CGGAGCAATTCGTTGACTATG	0.498													9	31	---	---	---	---	PASS
TTC21B	79809	broad.mit.edu	37	2	166806105	166806105	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:166806105C>T	uc002udk.2	-	2	284	c.151G>A	c.(151-153)GGT>AGT	p.G51S	TTC21B_uc002udl.2_Missense_Mutation_p.G51S|uc002udm.1_RNA	NM_024753	NP_079029	Q7Z4L5	TT21B_HUMAN	tetratricopeptide repeat domain 21B	51						cilium axoneme|cytoplasm|cytoskeleton	binding			ovary(2)|pancreas(2)|breast(1)	5						TAACACGTACCTTCCATTAAT	0.338													28	57	---	---	---	---	PASS
SCN1A	6323	broad.mit.edu	37	2	166848822	166848822	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:166848822C>T	uc010zcz.1	-	26	4948	c.4930G>A	c.(4930-4932)GGG>AGG	p.G1644R		NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1655	Helical; Voltage-sensor; Name=S4 of repeat IV; (By similarity).|IV.					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)	GTGCGGATCCCCTTTGCTCCT	0.502													57	85	---	---	---	---	PASS
SCN1A	6323	broad.mit.edu	37	2	166850913	166850913	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:166850913C>T	uc010zcz.1	-	25	4580	c.4562G>A	c.(4561-4563)GGA>GAA	p.G1521E		NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	1532	IV.					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)	AAAGACCATTCCTTGAAATTT	0.348													24	41	---	---	---	---	PASS
SCN1A	6323	broad.mit.edu	37	2	166897752	166897752	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:166897752C>T	uc010zcz.1	-	13	2389	c.2371G>A	c.(2371-2373)GTA>ATA	p.V791I	SCN1A_uc002udo.3_Missense_Mutation_p.V671I|SCN1A_uc010fpk.2_Missense_Mutation_p.V643I	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	802	Helical; Name=S2 of repeat II; (By similarity).|II.					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)	AAGTTTCCTACTGTAAGCACA	0.353													18	43	---	---	---	---	PASS
SCN1A	6323	broad.mit.edu	37	2	166905459	166905459	+	Missense_Mutation	SNP	C	T	T	rs121917928		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:166905459C>T	uc010zcz.1	-	7	983	c.965G>A	c.(964-966)AGA>AAA	p.R322K	SCN1A_uc002udo.3_Missense_Mutation_p.R191K|SCN1A_uc010fpk.2_Missense_Mutation_p.R191K	NM_006920	NP_008851	P35498	SCN1A_HUMAN	sodium channel, voltage-gated, type I, alpha	322	I.					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)	ATAATGATATCCTGTTTGAAA	0.294													6	24	---	---	---	---	PASS
SCN9A	6335	broad.mit.edu	37	2	167055474	167055474	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:167055474G>A	uc010fpl.2	-	27	5983	c.5642C>T	c.(5641-5643)TCT>TTT	p.S1881F	uc002udp.2_Intron	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	1892	IQ.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	GACAGTAGCAGACACATCCTC	0.393													57	72	---	---	---	---	PASS
SCN9A	6335	broad.mit.edu	37	2	167060473	167060473	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:167060473G>A	uc010fpl.2	-	26	5074	c.4733C>T	c.(4732-4734)TCC>TTC	p.S1578F	uc002udp.2_Intron	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	1589	Helical; Name=S3 of repeat IV; (Potential).|IV.					voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	ACCTACAATGGAGATAATCAC	0.323													7	9	---	---	---	---	PASS
SCN9A	6335	broad.mit.edu	37	2	167141026	167141026	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:167141026G>A	uc010fpl.2	-	12	2252	c.1911C>T	c.(1909-1911)CTC>CTT	p.L637L	uc002udp.2_Intron|SCN9A_uc002udr.1_Silent_p.L508L|SCN9A_uc002uds.1_Silent_p.L508L|SCN9A_uc002udt.1_Silent_p.L508L	NM_002977	NP_002968	Q15858	SCN9A_HUMAN	sodium channel, voltage-gated, type IX, alpha	637						voltage-gated sodium channel complex	voltage-gated sodium channel activity			ovary(6)|central_nervous_system(5)|skin(2)	13					Lamotrigine(DB00555)|Lidocaine(DB00281)	TGGGGAGCATGAGGGCTGAGC	0.547													20	35	---	---	---	---	PASS
SCN7A	6332	broad.mit.edu	37	2	167300037	167300037	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:167300037C>T	uc002udu.1	-	13	1903	c.1776G>A	c.(1774-1776)ATG>ATA	p.M592I	SCN7A_uc010fpm.1_RNA	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	592					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						GAAGAAGAGCCATTCCTGCAA	0.289													4	11	---	---	---	---	PASS
SCN7A	6332	broad.mit.edu	37	2	167300157	167300157	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:167300157C>T	uc002udu.1	-	13	1783	c.1656G>A	c.(1654-1656)ATG>ATA	p.M552I	SCN7A_uc010fpm.1_RNA	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	552	Helical; Name=S2 of repeat II; (By similarity).				muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						TTTTAAAAATCATTTCTGCTG	0.313													3	5	---	---	---	---	PASS
SCN7A	6332	broad.mit.edu	37	2	167301432	167301432	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:167301432G>A	uc002udu.1	-	12	1593	c.1466C>T	c.(1465-1467)CCC>CTC	p.P489L	SCN7A_uc010fpm.1_RNA	NM_002976	NP_002967	Q01118	SCN7A_HUMAN	sodium channel, voltage-gated, type VII, alpha	489					muscle contraction	voltage-gated sodium channel complex	voltage-gated sodium channel activity			large_intestine(1)	1						TAACCAACAGGGAGAACAATT	0.308													10	28	---	---	---	---	PASS
XIRP2	129446	broad.mit.edu	37	2	168098389	168098389	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:168098389A>G	uc002udx.2	+	7	1163	c.1145A>G	c.(1144-1146)AAA>AGA	p.K382R	XIRP2_uc010fpn.2_Missense_Mutation_p.K415R|XIRP2_uc010fpo.2_Missense_Mutation_p.K382R|XIRP2_uc010fpp.2_Missense_Mutation_p.K382R|XIRP2_uc002udy.2_Missense_Mutation_p.K207R|XIRP2_uc010fpq.2_Missense_Mutation_p.K160R|XIRP2_uc010fpr.2_Missense_Mutation_p.K160R	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	207					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TATTCTGACAAAGAGATGACA	0.363													30	70	---	---	---	---	PASS
XIRP2	129446	broad.mit.edu	37	2	168103270	168103270	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:168103270C>T	uc002udx.2	+	8	5386	c.5368C>T	c.(5368-5370)CTG>TTG	p.L1790L	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Silent_p.L1615L|XIRP2_uc010fpq.2_Silent_p.L1568L|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1615					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						AGGTACAAAACTGTTACTGAA	0.393													35	87	---	---	---	---	PASS
XIRP2	129446	broad.mit.edu	37	2	168103905	168103905	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:168103905G>A	uc002udx.2	+	8	6021	c.6003G>A	c.(6001-6003)ATG>ATA	p.M2001I	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.M1826I|XIRP2_uc010fpq.2_Missense_Mutation_p.M1779I|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_5'Flank	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	1826					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						GTCAAACTATGGGGAAATCTT	0.453													10	24	---	---	---	---	PASS
XIRP2	129446	broad.mit.edu	37	2	168105874	168105874	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:168105874G>A	uc002udx.2	+	8	7990	c.7972G>A	c.(7972-7974)GAA>AAA	p.E2658K	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.E2483K|XIRP2_uc010fpq.2_Missense_Mutation_p.E2436K|XIRP2_uc010fpr.2_Intron|XIRP2_uc010fps.1_Missense_Mutation_p.E4K	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	2483					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						GATGAAAAAGGAAGTTTTACA	0.403													43	47	---	---	---	---	PASS
XIRP2	129446	broad.mit.edu	37	2	168107429	168107429	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:168107429G>A	uc002udx.2	+	8	9545	c.9527G>A	c.(9526-9528)AGG>AAG	p.R3176K	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Missense_Mutation_p.R3001K|XIRP2_uc010fpq.2_Missense_Mutation_p.R2954K|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	3001					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TCTCCACCCAGGAGTCGCTCT	0.498													29	68	---	---	---	---	PASS
XIRP2	129446	broad.mit.edu	37	2	168108255	168108255	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:168108255C>T	uc002udx.2	+	8	10371	c.10353C>T	c.(10351-10353)TTC>TTT	p.F3451F	XIRP2_uc010fpn.2_Intron|XIRP2_uc010fpo.2_Intron|XIRP2_uc010fpp.2_Intron|XIRP2_uc002udy.2_Silent_p.F3276F|XIRP2_uc010fpq.2_Silent_p.F3229F|XIRP2_uc010fpr.2_Intron	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1	3276					actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						GCTGTGACTTCAAGCATGCCC	0.403													14	21	---	---	---	---	PASS
XIRP2	129446	broad.mit.edu	37	2	168115596	168115596	+	3'UTR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:168115596C>T	uc002udx.2	+	10					XIRP2_uc010fpn.2_Missense_Mutation_p.S880F|XIRP2_uc010fpo.2_Missense_Mutation_p.S847F|XIRP2_uc010fpp.2_Missense_Mutation_p.S847F|XIRP2_uc010fpq.2_3'UTR|XIRP2_uc010fpr.2_Missense_Mutation_p.S625F	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1						actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						ACTGCATTTTCCAAGAAAAAT	0.299													8	18	---	---	---	---	PASS
XIRP2	129446	broad.mit.edu	37	2	168115631	168115631	+	3'UTR	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:168115631A>T	uc002udx.2	+	10					XIRP2_uc010fpn.2_Missense_Mutation_p.I892L|XIRP2_uc010fpo.2_Missense_Mutation_p.I859L|XIRP2_uc010fpp.2_Missense_Mutation_p.I859L|XIRP2_uc010fpq.2_3'UTR|XIRP2_uc010fpr.2_Missense_Mutation_p.I637L	NM_152381	NP_689594	A4UGR9	XIRP2_HUMAN	xin actin-binding repeat containing 2 isoform 1						actin cytoskeleton organization	cell junction	actin binding			skin(7)|ovary(6)|pancreas(1)	14						TTGTGATTTAATAGATTCTGT	0.328													17	23	---	---	---	---	PASS
ABCB11	8647	broad.mit.edu	37	2	169830316	169830316	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:169830316C>T	uc002ueo.1	-	13	1469	c.1343G>A	c.(1342-1344)GGG>GAG	p.G448E	ABCB11_uc010zda.1_5'Flank|ABCB11_uc010zdb.1_5'Flank	NM_003742	NP_003733	O95342	ABCBB_HUMAN	ATP-binding cassette, sub-family B (MDR/TAP),	448	Cytoplasmic (Potential).|ABC transporter 1.				bile acid biosynthetic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|bile acid-exporting ATPase activity|canalicular bile acid transmembrane transporter activity|sodium-exporting ATPase activity, phosphorylative mechanism			ovary(2)|large_intestine(2)|breast(1)	5					Adenosine triphosphate(DB00171)|Bosentan(DB00559)|Glibenclamide(DB01016)	TGTCATTTCCCCTGGTTTAAT	0.438													29	77	---	---	---	---	PASS
LRP2	4036	broad.mit.edu	37	2	170003310	170003310	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:170003310C>T	uc002ues.2	-	69	12963	c.12750G>A	c.(12748-12750)AAG>AAA	p.K4250K		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	4250	LDL-receptor class B 37.|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)	TAACGTCCTCCTTGAAGTCAC	0.383													13	31	---	---	---	---	PASS
LRP2	4036	broad.mit.edu	37	2	170063416	170063416	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:170063416G>A	uc002ues.2	-	39	7027	c.6814C>T	c.(6814-6816)CGT>TGT	p.R2272C		NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	2272	LDL-receptor class B 23.|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)	CTGCCATAACGAATCACTTCA	0.393													41	66	---	---	---	---	PASS
LRP2	4036	broad.mit.edu	37	2	170136994	170136994	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:170136994C>T	uc002ues.2	-	11	1420	c.1207G>A	c.(1207-1209)GAT>AAT	p.D403N	LRP2_uc010zdf.1_Missense_Mutation_p.D403N	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	403	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)	ATTAACAAATCCCGACCATTG	0.493													8	28	---	---	---	---	PASS
LRP2	4036	broad.mit.edu	37	2	170136995	170136995	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:170136995C>T	uc002ues.2	-	11	1419	c.1206G>A	c.(1204-1206)CGG>CGA	p.R402R	LRP2_uc010zdf.1_Silent_p.R402R	NM_004525	NP_004516	P98164	LRP2_HUMAN	low density lipoprotein-related protein 2	402	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)	TTAACAAATCCCGACCATTGG	0.493													8	28	---	---	---	---	PASS
GAD1	2571	broad.mit.edu	37	2	171687555	171687555	+	Missense_Mutation	SNP	C	T	T	rs150945113		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:171687555C>T	uc002ugi.2	+	5	822	c.400C>T	c.(400-402)CGC>TGC	p.R134C	GAD1_uc002ugh.2_Missense_Mutation_p.R134C	NM_000817	NP_000808	Q99259	DCE1_HUMAN	glutamate decarboxylase 1 isoform GAD67	134					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion|protein-pyridoxal-5-phosphate linkage	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|plasma membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			ovary(1)	1					L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	GACATTTGATCGCTCCACCAA	0.542													15	30	---	---	---	---	PASS
GAD1	2571	broad.mit.edu	37	2	171716237	171716237	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:171716237G>A	uc002ugi.2	+	17	2052	c.1630G>A	c.(1630-1632)GCC>ACC	p.A544T	GAD1_uc010fqc.2_Missense_Mutation_p.A163T	NM_000817	NP_000808	Q99259	DCE1_HUMAN	glutamate decarboxylase 1 isoform GAD67	544					glutamate decarboxylation to succinate|neurotransmitter biosynthetic process|neurotransmitter secretion|protein-pyridoxal-5-phosphate linkage	clathrin sculpted gamma-aminobutyric acid transport vesicle membrane|plasma membrane	glutamate decarboxylase activity|protein binding|pyridoxal phosphate binding			ovary(1)	1					L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	AAAAATCAAAGCCCTGATGAT	0.468													7	25	---	---	---	---	PASS
TLK1	9874	broad.mit.edu	37	2	171974367	171974367	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:171974367C>T	uc002ugn.2	-	2	612	c.140G>A	c.(139-141)GGT>GAT	p.G47D	TLK1_uc002ugo.2_Missense_Mutation_p.G47D|TLK1_uc002ugp.2_Translation_Start_Site|TLK1_uc002ugq.2_RNA	NM_012290	NP_036422	Q9UKI8	TLK1_HUMAN	tousled-like kinase 1 isoform 1	47					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						ATCCATTGCACCTATTAAGAA	0.269													11	32	---	---	---	---	PASS
TLK1	9874	broad.mit.edu	37	2	171974368	171974368	+	Splice_Site	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:171974368C>T	uc002ugn.2	-	2	612	c.140_splice	c.e2-1	p.G47_splice	TLK1_uc002ugo.2_Splice_Site_p.G47_splice|TLK1_uc002ugp.2_Splice_Site|TLK1_uc002ugq.2_Splice_Site	NM_012290	NP_036422	Q9UKI8	TLK1_HUMAN	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						TCCATTGCACCTATTAAGAAA	0.269													8	32	---	---	---	---	PASS
SLC25A12	8604	broad.mit.edu	37	2	172701028	172701028	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:172701028G>A	uc002uhh.2	-						SLC25A12_uc010fqh.2_Intron|SLC25A12_uc010zdv.1_Intron	NM_003705	NP_003696	O75746	CMC1_HUMAN	solute carrier family 25, member 12						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)	TCTTAAAAGGGAAAACAAAAA	0.289													12	22	---	---	---	---	PASS
ITGA6	3655	broad.mit.edu	37	2	173352931	173352931	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:173352931G>A	uc002uhp.1	+	19	2683	c.2480G>A	c.(2479-2481)GGA>GAA	p.G827E	ITGA6_uc010zdy.1_Missense_Mutation_p.G708E|ITGA6_uc002uho.1_Missense_Mutation_p.G827E|ITGA6_uc010fqm.1_Missense_Mutation_p.G473E	NM_001079818	NP_001073286	P23229	ITA6_HUMAN	integrin alpha chain, alpha 6 isoform a	866	Extracellular (Potential).				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)			GATGAAGTGGGAAGTTTAATA	0.378													9	34	---	---	---	---	PASS
CHRNA1	1134	broad.mit.edu	37	2	175613498	175613498	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:175613498C>A	uc002ujd.2	-	9	1205	c.1127G>T	c.(1126-1128)AGA>ATA	p.R376I	uc002uiw.2_Intron|CHRNA1_uc002uje.2_Missense_Mutation_p.R351I	NM_001039523	NP_001034612	P02708	ACHA_HUMAN	nicotinic cholinergic receptor alpha 1 isoform a	376	Cytoplasmic.				muscle cell homeostasis|neuromuscular junction development|neuromuscular process|neuromuscular synaptic transmission|neuron homeostasis|regulation of action potential in neuron|skeletal muscle contraction|skeletal muscle tissue growth	cell junction|cell surface|neuromuscular junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity			ovary(2)|central_nervous_system(1)|skin(1)	4						TCTGGATGGTCTTTTCATTGT	0.393											OREG0015079	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	21	---	---	---	---	PASS
CHN1	1123	broad.mit.edu	37	2	175783301	175783301	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:175783301G>A	uc002uji.2	-						CHN1_uc010zeq.1_Intron|CHN1_uc002ujj.2_Intron	NM_001822	NP_001813	P15882	CHIN_HUMAN	chimerin (chimaerin) 1 isoform a						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|metal ion binding|SH3/SH2 adaptor activity			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.226)			CACCTATTGGGAAAGCAAAAA	0.308			T	TAF15	extraskeletal myxoid chondrosarcoma								5	5	---	---	---	---	PASS
KIAA1715	80856	broad.mit.edu	37	2	176812320	176812320	+	Silent	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:176812320T>C	uc002ukc.1	-	9	787	c.594A>G	c.(592-594)CCA>CCG	p.P198P	KIAA1715_uc010zer.1_Silent_p.P198P|KIAA1715_uc010fqw.1_Silent_p.P264P|KIAA1715_uc010zes.1_Silent_p.P200P|KIAA1715_uc002ukd.1_Silent_p.P75P|KIAA1715_uc010zet.1_RNA	NM_030650	NP_085153	Q9C0E8	LNP_HUMAN	Lunapark	198	Cytoplasmic (Potential).|Pro-rich.					integral to membrane	protein binding			ovary(2)|skin(1)	3			OV - Ovarian serous cystadenocarcinoma(117;0.0793)			AACTGTCCTTTGGTGGTCCAG	0.522													13	33	---	---	---	---	PASS
EVX2	344191	broad.mit.edu	37	2	176946977	176946977	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:176946977C>T	uc010zeu.1	-	2	814	c.628G>A	c.(628-630)GAG>AAG	p.E210K		NM_001080458	NP_001073927	Q03828	EVX2_HUMAN	even-skipped homeobox 2	210	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	READ - Rectum adenocarcinoma(9;0.0678)|Colorectal(32;0.115)		ACATAGTTCTCCCGGTAGAAC	0.662													3	5	---	---	---	---	PASS
EVX2	344191	broad.mit.edu	37	2	176946978	176946978	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:176946978C>T	uc010zeu.1	-	2	813	c.627G>A	c.(625-627)CGG>CGA	p.R209R		NM_001080458	NP_001073927	Q03828	EVX2_HUMAN	even-skipped homeobox 2	209	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(117;0.0207)|Epithelial(96;0.18)	READ - Rectum adenocarcinoma(9;0.0678)|Colorectal(32;0.115)		CATAGTTCTCCCGGTAGAACT	0.662													3	6	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179393301	179393301	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179393301C>T	uc010zfg.1	-	309	99697	c.99473G>A	c.(99472-99474)AGT>AAT	p.S33158N	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.S26853N|TTN_uc010zfi.1_Missense_Mutation_p.S26786N|TTN_uc010zfj.1_Missense_Mutation_p.S26661N|TTN_uc002umq.2_Missense_Mutation_p.S175N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	34085							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)			TGGCTCGCCACTGATTTCACA	0.363													9	16	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179407953	179407953	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179407953C>T	uc010zfg.1	-	296	89267	c.89043G>A	c.(89041-89043)TGG>TGA	p.W29681*	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Nonsense_Mutation_p.W23376*|TTN_uc010zfi.1_Nonsense_Mutation_p.W23309*|TTN_uc010zfj.1_Nonsense_Mutation_p.W23184*	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	30608							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)			CAACCTTCATCCATCTCTCTG	0.448													64	133	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179408626	179408626	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179408626T>G	uc010zfg.1	-	295	88765	c.88541A>C	c.(88540-88542)AAA>ACA	p.K29514T	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.K23209T|TTN_uc010zfi.1_Missense_Mutation_p.K23142T|TTN_uc010zfj.1_Missense_Mutation_p.K23017T	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	30441							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)			AATTGTGTATTTTCCAGCATC	0.403													24	66	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179425385	179425385	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179425385C>T	uc010zfg.1	-	275	77994	c.77770G>A	c.(77770-77772)GAA>AAA	p.E25924K	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E19619K|TTN_uc010zfi.1_Missense_Mutation_p.E19552K|TTN_uc010zfj.1_Missense_Mutation_p.E19427K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	26851							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)			TGGCTTGTTTCACGTTTTTCT	0.408													19	37	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179429955	179429955	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179429955G>A	uc010zfg.1	-	275	73424	c.73200C>T	c.(73198-73200)ATC>ATT	p.I24400I	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.I18095I|TTN_uc010zfi.1_Silent_p.I18028I|TTN_uc010zfj.1_Silent_p.I17903I	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	25327							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)			TTTCTAAAACGATAACACTGA	0.428													24	62	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179430570	179430570	+	Silent	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179430570A>G	uc010zfg.1	-	275	72809	c.72585T>C	c.(72583-72585)TTT>TTC	p.F24195F	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.F17890F|TTN_uc010zfi.1_Silent_p.F17823F|TTN_uc010zfj.1_Silent_p.F17698F	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	25122							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)			CACCAACTCCAAATTCATTTT	0.433													61	141	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179431329	179431329	+	Silent	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179431329T>C	uc010zfg.1	-	275	72050	c.71826A>G	c.(71824-71826)AAA>AAG	p.K23942K	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.K17637K|TTN_uc010zfi.1_Silent_p.K17570K|TTN_uc010zfj.1_Silent_p.K17445K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	24869							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)			CATAGATGGGTTTACCCCAGG	0.428													57	103	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179438046	179438046	+	Silent	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179438046T>C	uc010zfg.1	-	275	65333	c.65109A>G	c.(65107-65109)AAA>AAG	p.K21703K	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.K15398K|TTN_uc010zfi.1_Silent_p.K15331K|TTN_uc010zfj.1_Silent_p.K15206K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	22630							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)			TTTTGTTGCATTTAATCCAGC	0.408													17	50	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179463551	179463551	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179463551C>T	uc010zfg.1	-	240	49406	c.49182G>A	c.(49180-49182)CGG>CGA	p.R16394R	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Silent_p.R10089R|TTN_uc010zfi.1_Silent_p.R10022R|TTN_uc010zfj.1_Silent_p.R9897R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	17321							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)			TTGCATATACCCGGAATTGAT	0.458													32	109	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179466246	179466246	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179466246C>T	uc010zfg.1	-	236	47998	c.47774G>A	c.(47773-47775)AGG>AAG	p.R15925K	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.R9620K|TTN_uc010zfi.1_Missense_Mutation_p.R9553K|TTN_uc010zfj.1_Missense_Mutation_p.R9428K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16852							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)			GCAACTACCCCTTGTGATATC	0.413													46	101	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179466788	179466788	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179466788C>T	uc010zfg.1	-	233	47730	c.47506G>A	c.(47506-47508)GGA>AGA	p.G15836R	uc002umo.2_Intron|uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.G9531R|TTN_uc010zfi.1_Missense_Mutation_p.G9464R|TTN_uc010zfj.1_Missense_Mutation_p.G9339R	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	16763							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)			GTTGGGCGTCCCTTGATGACA	0.423													31	76	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179479601	179479601	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179479601C>T	uc010zfg.1	-	209	41253	c.41029G>A	c.(41029-41031)GAG>AAG	p.E13677K	uc002ump.1_Intron|TTN_uc010zfh.1_Missense_Mutation_p.E7372K|TTN_uc010zfi.1_Missense_Mutation_p.E7305K|TTN_uc010zfj.1_Missense_Mutation_p.E7180K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	14604							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)			TGGATTTCCTCTGTGGGTCTG	0.363													10	4	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179528042	179528042	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179528042C>T	uc010zfk.1	-	18	1637	c.1089G>A	c.(1087-1089)AAG>AAA	p.K363K	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;	11575							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)			CAGGCAACTTCTTTTCTGGGA	0.378													32	62	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179530162	179530162	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179530162G>A	uc010zfk.1	-	10	971	c.423C>T	c.(421-423)GTC>GTT	p.V141V	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)			TCATTTCAGGGACAACTTCTT	0.358													38	93	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179552937	179552937	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179552937C>T	uc010zfg.1	-	124	28704	c.28480G>A	c.(28480-28482)GAA>AAA	p.E9494K	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.E6155K|TTN_uc010fre.1_Intron	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	10421							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)			TAACTCCATTCCTCCTCTGCA	0.403													27	50	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179572409	179572409	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179572409C>T	uc010zfg.1	-	97	25377	c.25153G>A	c.(25153-25155)GAA>AAA	p.E8385K	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.E5046K	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	9312							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)			GGCTTTATTTCCCTGCCAGCC	0.498													15	30	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179576847	179576847	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179576847G>A	uc010zfg.1	-	93	24202	c.23978C>T	c.(23977-23979)TCC>TTC	p.S7993F	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.S4654F	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	8920							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)			TTTATACCAGGATACCCCAAT	0.423													21	40	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179587235	179587235	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179587235C>T	uc010zfg.1	-	74	18771	c.18547G>A	c.(18547-18549)GAC>AAC	p.D6183N	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.D2844N	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	7110							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)			TGTTCAATGTCCTTTAATTGT	0.418													47	68	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179594458	179594458	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179594458C>T	uc010zfg.1	-	60	15014	c.14790G>A	c.(14788-14790)GGG>GGA	p.G4930G	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Silent_p.G1591G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	5857							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)			ACACATAAGTCCCACTATTTT	0.443													23	71	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179600793	179600793	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179600793G>C	uc010zfg.1	-	47	10872	c.10648C>G	c.(10648-10650)CCA>GCA	p.P3550A	TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Missense_Mutation_p.P211A	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	4477							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)			AAGGTTGGTGGATATGCCTCT	0.418													22	49	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179605701	179605701	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179605701C>T	uc010zfh.1	-	46	11970	c.11746G>A	c.(11746-11748)GAA>AAA	p.E3916K	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Missense_Mutation_p.E3849K|TTN_uc010zfj.1_Missense_Mutation_p.E3724K|TTN_uc002umz.1_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	3853							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)			TGGTTTTCTTCTGTAATTAAA	0.418													29	79	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179611958	179611958	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179611958C>T	uc002unb.2	-	46	15393	c.15169G>A	c.(15169-15171)GAG>AAG	p.E5057K	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	1164							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)			TCTAGTGTCTCCCCTGGGGGT	0.498													8	29	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179614163	179614163	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179614163C>T	uc002unb.2	-	46	13188	c.12964G>A	c.(12964-12966)GAG>AAG	p.E4322K	TTN_uc010zfg.1_Intron|TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron	NM_133379	NP_596870	Q8WZ42	TITIN_HUMAN	titin isoform novex-3	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)			CGCACCTGCTCTTTCTGGTCT	0.408													23	50	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179621020	179621020	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179621020C>T	uc010zfh.1	-	44	10894	c.10670G>A	c.(10669-10671)GGA>GAA	p.G3557E	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron|TTN_uc002unb.2_Intron	NM_133437	NP_597681	Q8WZ42	TITIN_HUMAN	titin isoform novex-2	3571							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)			GCTGTATAGTCCTTGGTCTAC	0.398													27	87	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179621106	179621106	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179621106C>T	uc010zfh.1	-	44	10808	c.10584G>A	c.(10582-10584)AAG>AAA	p.K3528K	TTN_uc010zfg.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron|TTN_uc002unb.2_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)			ATTCCTCTATCTTTGCACCTT	0.408													24	52	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179632527	179632527	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179632527C>T	uc010zfg.1	-	40	9654	c.9430G>A	c.(9430-9432)GGC>AGC	p.G3144S	TTN_uc010zfh.1_Missense_Mutation_p.G3098S|TTN_uc010zfi.1_Missense_Mutation_p.G3098S|TTN_uc010zfj.1_Missense_Mutation_p.G3098S|TTN_uc002unb.2_Missense_Mutation_p.G3144S	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	3144							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)			ACATCTCTGCCTTCTACAAAG	0.433													18	50	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179637867	179637867	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179637867T>A	uc010zfg.1	-	33	8048	c.7824A>T	c.(7822-7824)GAA>GAT	p.E2608D	TTN_uc010zfh.1_Missense_Mutation_p.E2562D|TTN_uc010zfi.1_Missense_Mutation_p.E2562D|TTN_uc010zfj.1_Missense_Mutation_p.E2562D|TTN_uc002unb.2_Missense_Mutation_p.E2608D	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	2608							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)			ATGTCATATTTTCTCCCGCGT	0.274													10	28	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179640777	179640777	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179640777G>A	uc010zfg.1	-	28	6038	c.5814C>T	c.(5812-5814)GTC>GTT	p.V1938V	TTN_uc010zfh.1_Silent_p.V1892V|TTN_uc010zfi.1_Silent_p.V1892V|TTN_uc010zfj.1_Silent_p.V1892V|TTN_uc002unb.2_Silent_p.V1938V|uc002unc.1_5'Flank	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	1938							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)			CTCTCCTAAGGACAGACCTAA	0.453													45	86	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179648863	179648863	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179648863C>T	uc010zfg.1	-	16	2933	c.2709G>A	c.(2707-2709)GGG>GGA	p.G903G	TTN_uc010zfh.1_Silent_p.G857G|TTN_uc010zfi.1_Silent_p.G857G|TTN_uc010zfj.1_Silent_p.G857G|TTN_uc002unb.2_Silent_p.G903G	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	titin isoform N2-A	903							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)			TGATGCTCACCCCTACTTCCT	0.552													20	40	---	---	---	---	PASS
TTN	7273	broad.mit.edu	37	2	179665191	179665191	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179665191C>T	uc002und.2	-	4	739	c.514G>A	c.(514-516)GGG>AGG	p.G172R	TTN_uc010zfg.1_Missense_Mutation_p.G172R|TTN_uc010zfh.1_Missense_Mutation_p.G172R|TTN_uc010zfi.1_Missense_Mutation_p.G172R|TTN_uc010zfj.1_Missense_Mutation_p.G172R|TTN_uc002unb.2_Missense_Mutation_p.G172R			Q8WZ42	TITIN_HUMAN	Homo sapiens cDNA FLJ32040 fis, clone NTONG2000858, highly similar to H.sapiens mRNA for titin protein.	172							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)			GAATAGGTCCCTGAGTCCTCA	0.488													50	73	---	---	---	---	PASS
CCDC141	285025	broad.mit.edu	37	2	179702390	179702390	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179702390C>T	uc002unf.1	-	13	1888	c.1831G>A	c.(1831-1833)GAC>AAC	p.D611N	CCDC141_uc002une.1_Missense_Mutation_p.D61N	NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	611							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)			CCCTCCTTGTCAGTGGACACC	0.532													30	52	---	---	---	---	PASS
CCDC141	285025	broad.mit.edu	37	2	179733849	179733849	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179733849C>T	uc002unf.1	-	5	721	c.664G>A	c.(664-666)GAA>AAA	p.E222K		NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	222							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)			CTTACCTCTTCCTTGACTTGA	0.318													22	42	---	---	---	---	PASS
CCDC141	285025	broad.mit.edu	37	2	179736944	179736944	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179736944G>A	uc002unf.1	-	3	327	c.270C>T	c.(268-270)CTC>CTT	p.L90L		NM_173648	NP_775919	Q6ZP82	CC141_HUMAN	coiled-coil domain containing 141	90	Potential.						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)			CCAGCCGAAGGAGGCTAAGTT	0.458													11	30	---	---	---	---	PASS
DNAJC10	54431	broad.mit.edu	37	2	183593710	183593710	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:183593710C>T	uc002uow.1	+	7	1037	c.622C>T	c.(622-624)CGG>TGG	p.R208W	DNAJC10_uc002uox.1_RNA|DNAJC10_uc002uoy.1_RNA|DNAJC10_uc002uoz.1_Missense_Mutation_p.R208W|DNAJC10_uc010fro.1_RNA	NM_018981	NP_061854	Q8IXB1	DJC10_HUMAN	DnaJ (Hsp40) homolog, subfamily C, member 10	208	Thioredoxin 1.				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)			CTTCATTTTTCGGTCTGGAAT	0.363													21	36	---	---	---	---	PASS
NCKAP1	10787	broad.mit.edu	37	2	183841674	183841674	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:183841674C>T	uc002upc.2	-	15	1831	c.1429G>A	c.(1429-1431)GAT>AAT	p.D477N	NCKAP1_uc002upb.2_Missense_Mutation_p.D483N	NM_013436	NP_038464	Q9Y2A7	NCKP1_HUMAN	NCK-associated protein 1 isoform 1	477					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)			ACTTCCCCATCTTCAACTGTA	0.254													6	12	---	---	---	---	PASS
ZNF804A	91752	broad.mit.edu	37	2	185803648	185803648	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:185803648C>T	uc002uph.2	+	4	4119	c.3525C>T	c.(3523-3525)TCC>TCT	p.S1175S		NM_194250	NP_919226	Q7Z570	Z804A_HUMAN	zinc finger protein 804A	1175						intracellular	zinc ion binding			ovary(6)|skin(3)|large_intestine(1)|pancreas(1)	11						TTCCAGCTTCCGTTCTTCATC	0.512													28	80	---	---	---	---	PASS
CALCRL	10203	broad.mit.edu	37	2	188247996	188247996	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:188247996C>T	uc002upv.3	-	5	636	c.88G>A	c.(88-90)GAC>AAC	p.D30N	CALCRL_uc010frt.2_Missense_Mutation_p.D30N	NM_005795	NP_005786	Q16602	CALRL_HUMAN	calcitonin receptor-like precursor	30	Extracellular (Potential).					integral to plasma membrane				lung(3)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(96;0.227)			TGAATTGAGTCCTCAGGACTC	0.338													12	17	---	---	---	---	PASS
CALCRL	10203	broad.mit.edu	37	2	188247997	188247997	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:188247997C>A	uc002upv.3	-	5	635	c.87G>T	c.(85-87)GAG>GAT	p.E29D	CALCRL_uc010frt.2_Missense_Mutation_p.E29D	NM_005795	NP_005786	Q16602	CALRL_HUMAN	calcitonin receptor-like precursor	29	Extracellular (Potential).					integral to plasma membrane				lung(3)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(117;0.0554)|Epithelial(96;0.227)			GAATTGAGTCCTCAGGACTCT	0.338													12	17	---	---	---	---	PASS
COL3A1	1281	broad.mit.edu	37	2	189852823	189852823	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:189852823C>T	uc002uqj.1	+	6	662	c.545C>T	c.(544-546)CCC>CTC	p.P182L		NM_000090	NP_000081	P02461	CO3A1_HUMAN	collagen type III alpha 1 preproprotein	182	Triple-helical region.				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)	CCAGGCCCTCCCGGTCCCCCT	0.398													7	14	---	---	---	---	PASS
COL3A1	1281	broad.mit.edu	37	2	189854873	189854873	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:189854873C>T	uc002uqj.1	+	9	859	c.742C>T	c.(742-744)CCA>TCA	p.P248S	COL3A1_uc010frw.1_5'Flank	NM_000090	NP_000081	P02461	CO3A1_HUMAN	collagen type III alpha 1 preproprotein	248	Triple-helical region.				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)	GCCTGGACCTCCAGTGAGTCT	0.368													11	26	---	---	---	---	PASS
COL3A1	1281	broad.mit.edu	37	2	189870103	189870103	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:189870103G>A	uc002uqj.1	+	41	3076	c.2959G>A	c.(2959-2961)GGT>AGT	p.G987S		NM_000090	NP_000081	P02461	CO3A1_HUMAN	collagen type III alpha 1 preproprotein	987	Triple-helical region.			ANGLS -> PSGQN (in Ref. 20; AA sequence).	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)	AGGAGCTAACGGTCTCAGTGG	0.438													25	53	---	---	---	---	PASS
MSTN	2660	broad.mit.edu	37	2	190922314	190922314	+	Silent	SNP	C	T	T	rs35791082	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:190922314C>T	uc002urp.2	-	3	931	c.798G>A	c.(796-798)AGG>AGA	p.R266R		NM_005259	NP_005250	O14793	GDF8_HUMAN	myostatin precursor	266					muscle organ development|positive regulation of transcription, DNA-dependent	extracellular space	cytokine activity|growth factor activity			lung(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.000742)|Epithelial(96;0.0121)|all cancers(119;0.0395)			GACCAAAATCCCTTCTGGATC	0.408													16	39	---	---	---	---	PASS
NAB1	4664	broad.mit.edu	37	2	191524442	191524442	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:191524442C>T	uc002usb.2	+	4	1112	c.540C>T	c.(538-540)TCC>TCT	p.S180S	NAB1_uc010fsc.2_Silent_p.S180S|NAB1_uc010fsd.2_Silent_p.S180S|NAB1_uc002usc.2_Silent_p.S180S|NAB1_uc010zgh.1_Silent_p.S180S	NM_005966	NP_005957	Q13506	NAB1_HUMAN	NGFI-A binding protein 1	180					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0			OV - Ovarian serous cystadenocarcinoma(117;0.00318)|Epithelial(96;0.0405)|all cancers(119;0.109)			ACCTGGGCTCCCCCGCGTCCC	0.632													10	8	---	---	---	---	PASS
STAT4	6775	broad.mit.edu	37	2	192011344	192011344	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:192011344G>A	uc002usm.1	-	3	522	c.268C>T	c.(268-270)CTT>TTT	p.L90F	STAT4_uc010zgm.1_RNA|STAT4_uc010zgn.1_RNA|STAT4_uc010zgo.1_RNA|STAT4_uc002usn.1_Missense_Mutation_p.L90F|STAT4_uc002uso.2_Missense_Mutation_p.L90F|STAT4_uc002usp.3_Missense_Mutation_p.L90F|STAT4_uc010zgl.1_Missense_Mutation_p.L90F	NM_003151	NP_003142	Q14765	STAT4_HUMAN	signal transducer and activator of transcription	90					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)			CTTACCTGAAGGACCTTCCTA	0.284													8	18	---	---	---	---	PASS
STAT4	6775	broad.mit.edu	37	2	192011345	192011345	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:192011345G>A	uc002usm.1	-	3	521	c.267C>T	c.(265-267)GTC>GTT	p.V89V	STAT4_uc010zgm.1_RNA|STAT4_uc010zgn.1_RNA|STAT4_uc010zgo.1_RNA|STAT4_uc002usn.1_Silent_p.V89V|STAT4_uc002uso.2_Silent_p.V89V|STAT4_uc002usp.3_Silent_p.V89V|STAT4_uc010zgl.1_Silent_p.V89V	NM_003151	NP_003142	Q14765	STAT4_HUMAN	signal transducer and activator of transcription	89					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)			TTACCTGAAGGACCTTCCTAA	0.284													8	17	---	---	---	---	PASS
DNAH7	56171	broad.mit.edu	37	2	196671473	196671473	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:196671473C>T	uc002utj.3	-	54	10268	c.10167G>A	c.(10165-10167)AGG>AGA	p.R3389R		NM_018897	NP_061720	Q8WXX0	DYH7_HUMAN	dynein, axonemal, heavy chain 7	3389					ciliary or flagellar motility|microtubule-based movement	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|microtubule motor activity			skin(10)|ovary(2)	12						CCTTGTCTGGCCTCAAGCAAC	0.408													11	19	---	---	---	---	PASS
MARS2	92935	broad.mit.edu	37	2	198570720	198570720	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:198570720C>T	uc002uuq.2	+	1	634	c.591C>T	c.(589-591)CTC>CTT	p.L197L	uc002uup.2_Intron	NM_138395	NP_612404	Q96GW9	SYMM_HUMAN	methionine-tRNA synthetase 2 precursor	197					methionyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|methionine-tRNA ligase activity			ovary(1)|central_nervous_system(1)|skin(1)	3					L-Methionine(DB00134)	CTGTATCTCTCGAGAGCGGGC	0.587													16	27	---	---	---	---	PASS
BOLL	66037	broad.mit.edu	37	2	198640396	198640396	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:198640396C>T	uc002uus.2	-	5	655	c.345G>A	c.(343-345)GGG>GGA	p.G115G	BOLL_uc002uur.2_Silent_p.G121G|BOLL_uc002uut.2_Silent_p.G127G|BOLL_uc010zha.1_Intron|BOLL_uc002uuu.1_Silent_p.G121G	NM_033030	NP_149019	Q8N9W6	BOLL_HUMAN	boule isoform 2	115					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						TACGAGGGATCCCTACTTGTT	0.239													7	38	---	---	---	---	PASS
PLCL1	5334	broad.mit.edu	37	2	198948736	198948736	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:198948736G>A	uc010fsp.2	+	2	786	c.495G>A	c.(493-495)GAG>GAA	p.E165E	PLCL1_uc002uuv.3_Silent_p.E86E	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;	165	PH.|Interaction with PPP1C.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			ovary(1)|skin(1)	2					Quinacrine(DB01103)	CCATAAAAGAGATCAGACTGG	0.453													21	61	---	---	---	---	PASS
MPP4	58538	broad.mit.edu	37	2	202519625	202519625	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:202519625C>T	uc002uyk.3	-	18	1524	c.1316G>A	c.(1315-1317)GGA>GAA	p.G439E	MPP4_uc002uyi.3_Missense_Mutation_p.G57E|MPP4_uc010ftj.2_Missense_Mutation_p.G432E|MPP4_uc010zhq.1_Missense_Mutation_p.G408E|MPP4_uc010zhr.1_Missense_Mutation_p.G415E|MPP4_uc010zhs.1_Missense_Mutation_p.G364E|MPP4_uc002uyj.3_Missense_Mutation_p.G404E|MPP4_uc010zht.1_Missense_Mutation_p.G381E|MPP4_uc002uyl.3_RNA|MPP4_uc010ftk.2_Missense_Mutation_p.G395E	NM_033066	NP_149055	Q96JB8	MPP4_HUMAN	membrane protein, palmitoylated 4	439	Guanylate kinase-like.					cytoplasm	protein binding				0						CTCATTTACTCCAACACCAGA	0.353													5	23	---	---	---	---	PASS
MPP4	58538	broad.mit.edu	37	2	202519626	202519626	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:202519626C>T	uc002uyk.3	-	18	1523	c.1315G>A	c.(1315-1317)GGA>AGA	p.G439R	MPP4_uc002uyi.3_Missense_Mutation_p.G57R|MPP4_uc010ftj.2_Missense_Mutation_p.G432R|MPP4_uc010zhq.1_Missense_Mutation_p.G408R|MPP4_uc010zhr.1_Missense_Mutation_p.G415R|MPP4_uc010zhs.1_Missense_Mutation_p.G364R|MPP4_uc002uyj.3_Missense_Mutation_p.G404R|MPP4_uc010zht.1_Missense_Mutation_p.G381R|MPP4_uc002uyl.3_RNA|MPP4_uc010ftk.2_Missense_Mutation_p.G395R	NM_033066	NP_149055	Q96JB8	MPP4_HUMAN	membrane protein, palmitoylated 4	439	Guanylate kinase-like.					cytoplasm	protein binding				0						TCATTTACTCCAACACCAGAG	0.358													6	22	---	---	---	---	PASS
ALS2	57679	broad.mit.edu	37	2	202593787	202593787	+	Silent	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:202593787G>T	uc002uyo.2	-	14	3056	c.2700C>A	c.(2698-2700)CCC>CCA	p.P900P	ALS2_uc002uyp.3_Silent_p.P900P|ALS2_uc010ftl.2_RNA	NM_020919	NP_065970	Q96Q42	ALS2_HUMAN	alsin isoform 1	900					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						TCATTTTTCCGGGGAAGGTCT	0.443													5	102	---	---	---	---	PASS
ALS2CR8	79800	broad.mit.edu	37	2	203847162	203847162	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:203847162T>A	uc002uzo.2	+	15	2337	c.2057T>A	c.(2056-2058)CTT>CAT	p.L686H	ALS2CR8_uc010zia.1_Missense_Mutation_p.L610H|ALS2CR8_uc010zib.1_Missense_Mutation_p.L610H|ALS2CR8_uc010zic.1_Missense_Mutation_p.L598H|ALS2CR8_uc002uzp.2_Missense_Mutation_p.L686H	NM_001104586	NP_001098056	Q8N187	AL2S8_HUMAN	amyotrophic lateral sclerosis 2 (juvenile)	686										large_intestine(1)|ovary(1)	2						CACTCAGCTCTTAGTAAGTTG	0.353													28	52	---	---	---	---	PASS
PARD3B	117583	broad.mit.edu	37	2	206480410	206480410	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:206480410C>T	uc002var.1	+	23	3698	c.3491C>T	c.(3490-3492)CCC>CTC	p.P1164L	PARD3B_uc002vao.1_Missense_Mutation_p.P1063L|PARD3B_uc002vap.1_Missense_Mutation_p.P1102L|PARD3B_uc002vaq.1_Missense_Mutation_p.P1095L|uc010fuc.1_5'Flank	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	1164					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)		CCTTCCCCTCCCCAGCACCAA	0.632													17	49	---	---	---	---	PASS
PARD3B	117583	broad.mit.edu	37	2	206480411	206480411	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:206480411C>T	uc002var.1	+	23	3699	c.3492C>T	c.(3490-3492)CCC>CCT	p.P1164P	PARD3B_uc002vao.1_Silent_p.P1063P|PARD3B_uc002vap.1_Silent_p.P1102P|PARD3B_uc002vaq.1_Silent_p.P1095P|uc010fuc.1_5'Flank	NM_152526	NP_689739	Q8TEW8	PAR3L_HUMAN	par-3 partitioning defective 3 homolog B isoform	1164					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)		CTTCCCCTCCCCAGCACCAAA	0.627													17	49	---	---	---	---	PASS
PLEKHM3	389072	broad.mit.edu	37	2	208841613	208841613	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:208841613G>A	uc002vcl.2	-	3	1798	c.1308C>T	c.(1306-1308)CTC>CTT	p.L436L	PLEKHM3_uc002vcm.2_Silent_p.L436L	NM_001080475	NP_001073944	Q6ZWE6	PKHM3_HUMAN	pleckstrin homology domain containing, family M,	436	PH 2.				intracellular signal transduction		metal ion binding			ovary(1)	1						TCTCAGCTCGGAGGCGAAGGA	0.547													14	26	---	---	---	---	PASS
MAP2	4133	broad.mit.edu	37	2	210569220	210569220	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:210569220C>T	uc002vde.1	+						MAP2_uc002vdd.1_Missense_Mutation_p.S188F|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Missense_Mutation_p.S188F|MAP2_uc002vdi.1_Intron	NM_002374	NP_002365	P11137	MAP2_HUMAN	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)	AGCACAAAGTCCCCAAGATAC	0.418													44	101	---	---	---	---	PASS
MAP2	4133	broad.mit.edu	37	2	210569221	210569221	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:210569221C>T	uc002vde.1	+						MAP2_uc002vdd.1_Silent_p.S188S|MAP2_uc002vdf.1_Intron|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Silent_p.S188S|MAP2_uc002vdi.1_Intron	NM_002374	NP_002365	P11137	MAP2_HUMAN	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)	GCACAAAGTCCCCAAGATACA	0.423													45	99	---	---	---	---	PASS
MAP2	4133	broad.mit.edu	37	2	210588342	210588342	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:210588342C>T	uc002vde.1	+						MAP2_uc002vdd.1_Silent_p.I400I|MAP2_uc002vdf.1_Silent_p.I343I|MAP2_uc002vdg.1_Intron|MAP2_uc002vdh.1_Intron|MAP2_uc002vdi.1_Intron	NM_002374	NP_002365	P11137	MAP2_HUMAN	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)	ACAAGAAGATCGATTTTAGCA	0.413													10	37	---	---	---	---	PASS
UNC80	285175	broad.mit.edu	37	2	210642019	210642019	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:210642019C>T	uc010zjc.1	+	4	416	c.336C>T	c.(334-336)CTC>CTT	p.L112L	UNC80_uc002vdj.1_Silent_p.L112L	NM_032504	NP_115893	Q8N2C7	UNC80_HUMAN	chromosome 2 open reading frame 21 isoform 1	112						integral to membrane					0						AGACAAAGCTCCTTCACACTC	0.532													28	49	---	---	---	---	PASS
CPS1	1373	broad.mit.edu	37	2	211513227	211513227	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:211513227G>A	uc002vee.3	+	27	3499	c.3367G>A	c.(3367-3369)GAC>AAC	p.D1123N	CPS1_uc010fur.2_Missense_Mutation_p.D1129N|CPS1_uc010fus.2_Missense_Mutation_p.D672N	NM_001875	NP_001866	P31327	CPSM_HUMAN	carbamoyl-phosphate synthetase 1 isoform b	1123	ATP-grasp 2.				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)		AAAGTCTGTGGACTACCCCTG	0.323													21	42	---	---	---	---	PASS
ERBB4	2066	broad.mit.edu	37	2	212285228	212285228	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:212285228G>A	uc002veg.1	-	25	3171	c.3073C>T	c.(3073-3075)CCT>TCT	p.P1025S	ERBB4_uc002veh.1_Missense_Mutation_p.P1025S|ERBB4_uc010zji.1_Missense_Mutation_p.P1015S|ERBB4_uc010zjj.1_Missense_Mutation_p.P1015S	NM_005235	NP_005226	Q15303	ERBB4_HUMAN	v-erb-a erythroblastic leukemia viral oncogene	1025	Cytoplasmic (Potential).				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)		AAAGCCTGAGGGACCAAGTAC	0.403										TSP Lung(8;0.080)			15	19	---	---	---	---	PASS
SPAG16	79582	broad.mit.edu	37	2	214878802	214878802	+	Splice_Site	SNP	G	A	A	rs148142146		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:214878802G>A	uc002veq.2	+	13	1619	c.1527_splice	c.e13+1	p.T509_splice	SPAG16_uc010fuz.1_Splice_Site_p.T360_splice|SPAG16_uc002ver.2_Splice_Site_p.T455_splice|SPAG16_uc010zjk.1_Splice_Site_p.T415_splice	NM_024532	NP_078808	Q8N0X2	SPG16_HUMAN	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)		TGCAAGAACAGTAAGCAAATC	0.383													23	41	---	---	---	---	PASS
VWC2L	402117	broad.mit.edu	37	2	215279217	215279217	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:215279217G>A	uc002vet.2	+	2	430	c.300G>A	c.(298-300)GTG>GTA	p.V100V	VWC2L_uc010zjl.1_Silent_p.V100V	NM_001080500	NP_001073969	B2RUY7	VWC2L_HUMAN	von Willebrand factor C domain-containing	100	VWFC 1.					extracellular region					0						GTACTAAAGTGGAACACAATG	0.413													9	30	---	---	---	---	PASS
ABCA12	26154	broad.mit.edu	37	2	215831648	215831648	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:215831648G>A	uc002vew.2	-	39	6028	c.5808C>T	c.(5806-5808)TCC>TCT	p.S1936S	ABCA12_uc002vev.2_Silent_p.S1618S|ABCA12_uc010zjn.1_Silent_p.S863S	NM_173076	NP_775099	Q86UK0	ABCAC_HUMAN	ATP-binding cassette, sub-family A, member 12	1936					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)		AAGCTGGAAGGGAGTGATAGC	0.383													14	23	---	---	---	---	PASS
FN1	2335	broad.mit.edu	37	2	216251538	216251538	+	Missense_Mutation	SNP	G	A	A	rs139078629	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:216251538G>A	uc002vfa.2	-	28	4752	c.4486C>T	c.(4486-4488)CGG>TGG	p.R1496W	FN1_uc002vfb.2_Missense_Mutation_p.R1405W|FN1_uc002vfc.2_Missense_Mutation_p.R1405W|FN1_uc002vfd.2_Missense_Mutation_p.R1496W|FN1_uc002vfe.2_Missense_Mutation_p.R1405W|FN1_uc002vff.2_Missense_Mutation_p.R1405W|FN1_uc002vfg.2_Missense_Mutation_p.R1405W|FN1_uc002vfh.2_Missense_Mutation_p.R1405W|FN1_uc002vfi.2_Missense_Mutation_p.R1496W|FN1_uc002vfj.2_Missense_Mutation_p.R1496W|FN1_uc002vez.2_5'UTR|FN1_uc010zjp.1_Missense_Mutation_p.R123W	NM_212482	NP_997647	P02751	FINC_HUMAN	fibronectin 1 isoform 1 preproprotein	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					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)	TGGGGCACCCGATCTTCTCGA	0.547													16	23	---	---	---	---	PASS
XRCC5	7520	broad.mit.edu	37	2	216983789	216983789	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:216983789A>C	uc002vfy.2	+	5	532	c.392A>C	c.(391-393)CAT>CCT	p.H131P	XRCC5_uc002vfz.2_Missense_Mutation_p.H17P	NM_021141	NP_066964	P13010	XRCC5_HUMAN	ATP-dependent DNA helicase II	131					double-strand break repair via nonhomologous end joining|initiation of viral infection|negative regulation of transcription, DNA-dependent|provirus integration|telomere maintenance|transcription, DNA-dependent	Ku70:Ku80 complex|nonhomologous end joining complex|nuclear telomere cap complex|nucleoplasm	ATP binding|ATP-dependent DNA helicase activity|double-stranded DNA binding|protein C-terminus binding|telomeric DNA binding|transcription regulatory region DNA binding			lung(1)|kidney(1)	2		Renal(323;0.0328)		Epithelial(149;9.78e-06)|all cancers(144;0.000632)|LUSC - Lung squamous cell carcinoma(224;0.00871)|Lung(261;0.0117)		GAGAAGAGGCATATTGAAATA	0.343								Direct_reversal_of_damage|NHEJ					10	25	---	---	---	---	PASS
SLC11A1	6556	broad.mit.edu	37	2	219256088	219256088	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:219256088C>T	uc002vhv.2	+						SLC11A1_uc010fvp.1_Intron|SLC11A1_uc010fvq.1_Intron|SLC11A1_uc010zkc.1_Intron|SLC11A1_uc002vhu.1_Intron|SLC11A1_uc002vhw.2_Intron|SLC11A1_uc010fvr.2_Intron	NM_000578	NP_000569	P49279	NRAM1_HUMAN	natural resistance-associated macrophage protein						activation of protein kinase activity|antigen processing and presentation of peptide antigen|cadmium ion transmembrane transport|cellular cadmium ion homeostasis|cellular iron ion homeostasis|defense response to Gram-negative bacterium|defense response to protozoan|divalent metal ion export|inflammatory response|interleukin-2 production|interleukin-3 production|iron ion transport|L-arginine import|macrophage activation|MHC class II biosynthetic process|mRNA stabilization|multicellular organismal iron ion homeostasis|negative regulation of cytokine production|nitrite transport|phagocytosis|positive regulation of dendritic cell antigen processing and presentation|positive regulation of interferon-gamma production|positive regulation of phagocytosis|positive regulation of T-helper 1 type immune response|positive regulation of transcription from RNA polymerase II promoter|respiratory burst|response to interferon-gamma|response to lipopolysaccharide|T cell cytokine production|T cell proliferation involved in immune response|vacuolar acidification|wound healing	integral to plasma membrane|late endosome membrane|lysosome|phagocytic vesicle membrane|tertiary granule membrane	manganese ion transmembrane transporter activity|metal ion:hydrogen antiporter activity|protein homodimerization activity			ovary(3)|central_nervous_system(1)	4		Renal(207;0.0474)		Epithelial(149;1.16e-06)|all cancers(144;0.000195)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CTACCACACTCGTCCCTGCAG	0.701													3	12	---	---	---	---	PASS
VIL1	7429	broad.mit.edu	37	2	219292727	219292727	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:219292727G>A	uc002via.2	+	5	452	c.387G>A	c.(385-387)GTG>GTA	p.V129V	VIL1_uc010zke.1_Intron|VIL1_uc002vib.2_Silent_p.V129V|VIL1_uc002vic.1_Silent_p.V129V	NM_007127	NP_009058	P09327	VILI_HUMAN	villin 1	129	Core.			GMKHV->AMHKTS: Inhibits actin-severing activity and motility of the S.flexneri, does not inhibit activities regarding actin nucleation, actin capping and actin bundling, lamellipodium or ruffle localization and cell morphology; when associated with 86-N--E-91.	actin filament capping|actin filament depolymerization|actin filament polymerization|actin filament severing|apoptosis|cellular response to epidermal growth factor stimulus|cytoplasmic actin-based contraction involved in cell motility|epidermal growth factor receptor signaling pathway|positive regulation of actin filament bundle assembly|positive regulation of epithelial cell migration|regulation of actin nucleation|regulation of cell shape|regulation of lamellipodium morphogenesis|regulation of wound healing|response to bacterium	actin filament bundle|cytoplasm|filopodium tip|intracellular membrane-bounded organelle|lamellipodium|microvillus|ruffle	actin filament binding|calcium ion binding|caspase inhibitor activity|lysophosphatidic acid binding|phosphatidylinositol-4,5-bisphosphate binding|protein homodimerization activity			ovary(1)	1		Renal(207;0.0474)		Epithelial(149;6.88e-07)|all cancers(144;0.00013)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		TGAAGCACGTGGAGACCAACT	0.617													40	89	---	---	---	---	PASS
STK36	27148	broad.mit.edu	37	2	219562286	219562286	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:219562286C>T	uc002viu.2	+	24	3128	c.2862C>T	c.(2860-2862)ATC>ATT	p.I954I	STK36_uc002viv.2_Silent_p.I933I|STK36_uc002viw.2_Silent_p.I132I|STK36_uc002vix.2_Missense_Mutation_p.P16S	NM_015690	NP_056505	Q9NRP7	STK36_HUMAN	serine/threonine kinase 36	954					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			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)		TCATGTCCATCCTGAAGCATC	0.577													20	44	---	---	---	---	PASS
TTLL4	9654	broad.mit.edu	37	2	219617859	219617859	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:219617859G>A	uc002viy.2	+	18	3579	c.3209G>A	c.(3208-3210)TGG>TAG	p.W1070*	TTLL4_uc010zkl.1_Nonsense_Mutation_p.W905*|TTLL4_uc010fvx.2_Nonsense_Mutation_p.W1006*|TTLL4_uc010zkm.1_3'UTR	NM_014640	NP_055455	Q14679	TTLL4_HUMAN	tubulin tyrosine ligase-like family, member 4	1070					protein polyglutamylation	cilium|microtubule basal body	ATP binding|tubulin binding|tubulin-tyrosine ligase activity			ovary(2)|skin(1)	3		Renal(207;0.0915)		Epithelial(149;5.03e-07)|all cancers(144;0.000106)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0101)		CTCCGGAGTTGGTGCTACAAA	0.517													81	171	---	---	---	---	PASS
CYP27A1	1593	broad.mit.edu	37	2	219677482	219677482	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:219677482C>T	uc002viz.3	+							NM_000784	NP_000775	Q02318	CP27A_HUMAN	cytochrome P450, family 27, subfamily A,						bile acid biosynthetic process|xenobiotic metabolic process	mitochondrial matrix	cholestanetriol 26-monooxygenase activity|electron carrier activity|heme binding			ovary(1)	1		Renal(207;0.0474)		Epithelial(149;9.48e-07)|all cancers(144;0.000171)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.00981)	Cholecalciferol(DB00169)	GGTGAGGACTCCCAGATGGGG	0.582													44	99	---	---	---	---	PASS
PRKAG3	53632	broad.mit.edu	37	2	219692566	219692566	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:219692566C>T	uc002vjb.1	-	7	829	c.810G>A	c.(808-810)GAG>GAA	p.E270E	PRKAG3_uc010zkn.1_Intron|PRKAG3_uc010fvy.1_Missense_Mutation_p.R312K	NM_017431	NP_059127	Q9UGI9	AAKG3_HUMAN	AMP-activated protein kinase, non-catalytic	270					cell cycle arrest|fatty acid biosynthetic process|insulin receptor signaling pathway|intracellular protein kinase cascade|regulation of fatty acid oxidation	cytosol	AMP-activated protein kinase activity|protein kinase binding			ovary(1)|lung(1)	2		Renal(207;0.0474)		Epithelial(149;4.35e-07)|all cancers(144;8.96e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		CCCTCCAGGTCTCAATCTTAT	0.562													11	18	---	---	---	---	PASS
CCDC108	255101	broad.mit.edu	37	2	219888009	219888009	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:219888009C>T	uc002vjl.1	-	16	2824	c.2740G>A	c.(2740-2742)GAG>AAG	p.E914K		NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	914	MSP.					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)		ACCCTCCACTCGAACTGCAGG	0.632													5	14	---	---	---	---	PASS
CCDC108	255101	broad.mit.edu	37	2	219894862	219894862	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:219894862G>A	uc002vjl.1	-	10	1314	c.1230C>T	c.(1228-1230)CCC>CCT	p.P410P	CCDC108_uc010fwa.1_5'UTR|CCDC108_uc010zkp.1_Silent_p.P399P|CCDC108_uc010zkq.1_Silent_p.P345P	NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	410						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)		CATGGGCCGTGGGGCATGAGA	0.552											OREG0015211	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	21	42	---	---	---	---	PASS
CCDC108	255101	broad.mit.edu	37	2	219894863	219894863	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:219894863G>A	uc002vjl.1	-	10	1313	c.1229C>T	c.(1228-1230)CCC>CTC	p.P410L	CCDC108_uc010fwa.1_5'UTR|CCDC108_uc010zkp.1_Missense_Mutation_p.P399L|CCDC108_uc010zkq.1_Missense_Mutation_p.P345L	NM_194302	NP_919278	Q6ZU64	CC108_HUMAN	coiled-coil domain containing 108 isoform 1	410						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)		ATGGGCCGTGGGGCATGAGAA	0.557											OREG0015211	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	22	41	---	---	---	---	PASS
DNAJB2	3300	broad.mit.edu	37	2	220147635	220147635	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:220147635C>T	uc002vkx.1	+	6	666	c.429C>T	c.(427-429)TCC>TCT	p.S143S	DNAJB2_uc002vkw.1_Silent_p.S143S|DNAJB2_uc002vky.2_5'UTR|DNAJB2_uc010zlb.1_5'UTR	NM_006736	NP_006727	P25686	DNJB2_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 2	143					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)		TCTCTTCCTCCTTCCCTGGGC	0.552													13	42	---	---	---	---	PASS
DES	1674	broad.mit.edu	37	2	220286069	220286069	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:220286069C>T	uc002vll.2	+	6	1117	c.1031C>T	c.(1030-1032)TCC>TTC	p.S344F		NM_001927	NP_001918	P17661	DESM_HUMAN	desmin	344	Rod.|Coil 2B.				cytoskeleton organization|muscle filament sliding|regulation of heart contraction	cytosol|Z disc	protein binding|structural constituent of cytoskeleton			central_nervous_system(2)	2		Renal(207;0.0183)		Epithelial(149;5.25e-07)|all cancers(144;0.000103)|Lung(261;0.00533)|LUSC - Lung squamous cell carcinoma(224;0.008)		CAGAACGATTCCCTGATGAGG	0.582													19	47	---	---	---	---	PASS
ACCN4	55515	broad.mit.edu	37	2	220396842	220396842	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:220396842G>A	uc002vma.2	+	3	1242	c.1228G>A	c.(1228-1230)GAA>AAA	p.E410K	ACCN4_uc010fwi.1_Missense_Mutation_p.E410K|ACCN4_uc010fwj.1_Missense_Mutation_p.E410K|ACCN4_uc002vly.1_Missense_Mutation_p.E410K|ACCN4_uc002vlz.2_Missense_Mutation_p.E410K|ACCN4_uc002vmb.2_Missense_Mutation_p.E64K	NM_182847	NP_878267	Q96FT7	ACCN4_HUMAN	amiloride-sensitive cation channel 4 isoform 2	410	Extracellular (Potential).					integral to plasma membrane	sodium channel activity|sodium ion transmembrane transporter activity			ovary(2)	2		Renal(207;0.0183)		Epithelial(149;5.47e-10)|all cancers(144;9e-08)|LUSC - Lung squamous cell carcinoma(224;0.00813)|Lung(261;0.0086)|READ - Rectum adenocarcinoma(5;0.156)		GTCCTGCCAGGAACAGCGGGT	0.622													18	41	---	---	---	---	PASS
OBSL1	23363	broad.mit.edu	37	2	220432668	220432668	+	Silent	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:220432668G>T	uc010fwk.2	-	3	1363	c.1306C>A	c.(1306-1308)CGG>AGG	p.R436R	OBSL1_uc010fwl.1_5'Flank|OBSL1_uc002vmi.2_Silent_p.R436R|OBSL1_uc002vmj.2_Silent_p.R23R	NM_015311	NP_056126	O75147	OBSL1_HUMAN	obscurin-like 1	436					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)		TCGAGCTTCCGGGGCAGGCGC	0.642													11	19	---	---	---	---	PASS
OBSL1	23363	broad.mit.edu	37	2	220432669	220432669	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:220432669G>A	uc010fwk.2	-	3	1362	c.1305C>T	c.(1303-1305)CCC>CCT	p.P435P	OBSL1_uc010fwl.1_5'Flank|OBSL1_uc002vmi.2_Silent_p.P435P|OBSL1_uc002vmj.2_Silent_p.P22P	NM_015311	NP_056126	O75147	OBSL1_HUMAN	obscurin-like 1	435					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)		CGAGCTTCCGGGGCAGGCGCT	0.642													11	17	---	---	---	---	PASS
SLC4A3	6508	broad.mit.edu	37	2	220498187	220498187	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:220498187C>T	uc002vmp.3	+						SLC4A3_uc002vmo.3_Intron|SLC4A3_uc010fwm.2_Intron|SLC4A3_uc010fwn.1_Intron	NM_005070	NP_005061	P48751	B3A3_HUMAN	solute carrier family 4, anion exchanger, member						bicarbonate transport	integral to plasma membrane|membrane fraction	inorganic anion exchanger activity			ovary(2)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	5		Renal(207;0.0183)		Epithelial(149;2.53e-07)|all cancers(144;5.57e-05)|LUSC - Lung squamous cell carcinoma(224;0.008)|Lung(261;0.00942)		GAGGTCAGTGCCCTTGCTTTG	0.622													4	10	---	---	---	---	PASS
MOGAT1	116255	broad.mit.edu	37	2	223559194	223559194	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:223559194G>A	uc010fws.1	+	4	640	c.592G>A	c.(592-594)GGA>AGA	p.G198R	MOGAT1_uc010fwt.1_Missense_Mutation_p.G158R	NM_058165	NP_477513	Q96PD6	MOGT1_HUMAN	monoacylglycerol O-acyltransferase 1	198					glycerol metabolic process	endoplasmic reticulum membrane|integral to membrane	2-acylglycerol O-acyltransferase activity			breast(1)	1		Renal(207;0.0183)		Epithelial(121;4.13e-10)|all cancers(144;2.06e-07)|LUSC - Lung squamous cell carcinoma(224;0.00829)|Lung(261;0.0105)		TGCTCATCCTGGAAAGTTCAC	0.448													17	29	---	---	---	---	PASS
ACSL3	2181	broad.mit.edu	37	2	223782757	223782757	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:223782757C>T	uc002vni.2	+						ACSL3_uc002vnj.2_Intron	NM_004457	NP_004448	O95573	ACSL3_HUMAN	acyl-CoA synthetase long-chain family member 3						long-chain fatty-acyl-CoA biosynthetic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane|microsome|mitochondrial outer membrane|peroxisomal membrane	ATP binding|fatty-acyl-CoA synthase activity|long-chain fatty acid-CoA ligase activity|protein binding			ovary(2)	2		Renal(207;0.0183)		Epithelial(121;1.28e-10)|all cancers(144;8.06e-08)|Lung(261;0.00834)|LUSC - Lung squamous cell carcinoma(224;0.00864)	Icosapent(DB00159)	GCTGCTTTTCCTTTTAGTTGT	0.363			T	ETV1	prostate								12	13	---	---	---	---	PASS
SCG2	7857	broad.mit.edu	37	2	224463020	224463020	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:224463020C>T	uc002vnm.2	-	2	1114	c.981G>A	c.(979-981)CAG>CAA	p.Q327Q		NM_003469	NP_003460	P13521	SCG2_HUMAN	secretogranin II precursor	327					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)		TTTGCCCATTCTGTAACCTCC	0.403													26	72	---	---	---	---	PASS
DOCK10	55619	broad.mit.edu	37	2	225662655	225662655	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:225662655G>A	uc010fwz.1	-	42	4777	c.4538C>T	c.(4537-4539)TCA>TTA	p.S1513L	DOCK10_uc002vob.2_Missense_Mutation_p.S1507L|DOCK10_uc002voa.2_Missense_Mutation_p.S169L|DOCK10_uc002voc.2_Missense_Mutation_p.S367L	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	1513							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)		TTTCATCAATGAATTTTGACA	0.343													28	46	---	---	---	---	PASS
DOCK10	55619	broad.mit.edu	37	2	225710316	225710316	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:225710316A>G	uc010fwz.1	-	20	2518	c.2279T>C	c.(2278-2280)ATT>ACT	p.I760T	DOCK10_uc002vob.2_Missense_Mutation_p.I754T	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	760	DHR-1.						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)		AGAAAACAAAATATGGTGTTT	0.388													31	70	---	---	---	---	PASS
DOCK10	55619	broad.mit.edu	37	2	225714262	225714262	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:225714262C>T	uc010fwz.1	-	19	2436	c.2197G>A	c.(2197-2199)GTT>ATT	p.V733I	DOCK10_uc002vob.2_Missense_Mutation_p.V727I	NM_014689	NP_055504	Q96BY6	DOC10_HUMAN	dedicator of cytokinesis 10	733	DHR-1.						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)		TGGTGCAGAACTGCTGTGTAG	0.463													3	11	---	---	---	---	PASS
KIAA1486	57624	broad.mit.edu	37	2	226447151	226447151	+	Missense_Mutation	SNP	C	T	T	rs138393299		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:226447151C>T	uc002voe.2	+	4	1193	c.1018C>T	c.(1018-1020)CCC>TCC	p.P340S	KIAA1486_uc010fxa.1_Intron|KIAA1486_uc002vof.1_Missense_Mutation_p.P110S	NM_020864	NP_065915	Q9P242	K1486_HUMAN	hypothetical protein LOC57624	340	Pro-rich.									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)		GCTGGTATTTCCCCCCGCCCC	0.632													7	11	---	---	---	---	PASS
COL4A3	1285	broad.mit.edu	37	2	228148505	228148505	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:228148505G>A	uc002vom.1	+	33	2841	c.2679G>A	c.(2677-2679)ATG>ATA	p.M893I	COL4A3_uc002von.1_Missense_Mutation_p.M893I|COL4A3_uc002voo.1_Missense_Mutation_p.M893I|COL4A3_uc002vop.1_Missense_Mutation_p.M893I|uc002voq.1_Intron|uc002vor.1_Intron	NM_000091	NP_000082	Q01955	CO4A3_HUMAN	alpha 3 type IV collagen isoform 1 precursor	893	Triple-helical region.				activation of caspase activity|axon guidance|blood circulation|cell adhesion|cell proliferation|cell surface receptor linked signaling pathway|glomerular basement membrane development|induction of apoptosis|negative regulation of angiogenesis|negative regulation of cell proliferation|sensory perception of sound	collagen type IV	extracellular matrix structural constituent|integrin binding|metalloendopeptidase inhibitor activity			skin(2)|ovary(1)	3		all_lung(227;0.00101)|Lung NSC(271;0.00278)|Renal(207;0.0112)|Ovarian(221;0.0129)|all_hematologic(139;0.211)|Esophageal squamous(248;0.247)		Epithelial(121;1.17e-46)|all cancers(144;6.87e-42)|Lung(261;0.0137)|LUSC - Lung squamous cell carcinoma(224;0.0187)		TGATTGGGATGATGGGCTTTC	0.463													18	56	---	---	---	---	PASS
COL4A3	1285	broad.mit.edu	37	2	228157944	228157944	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:228157944G>A	uc002vom.1	+	38	3410	c.3248G>A	c.(3247-3249)GGA>GAA	p.G1083E	COL4A3_uc002von.1_Missense_Mutation_p.G1083E|COL4A3_uc002voo.1_Missense_Mutation_p.G1083E|COL4A3_uc002vop.1_Missense_Mutation_p.G1083E|uc002voq.1_Intron|uc002vor.1_Intron	NM_000091	NP_000082	Q01955	CO4A3_HUMAN	alpha 3 type IV collagen isoform 1 precursor	1083	Triple-helical region.				activation of caspase activity|axon guidance|blood circulation|cell adhesion|cell proliferation|cell surface receptor linked signaling pathway|glomerular basement membrane development|induction of apoptosis|negative regulation of angiogenesis|negative regulation of cell proliferation|sensory perception of sound	collagen type IV	extracellular matrix structural constituent|integrin binding|metalloendopeptidase inhibitor activity			skin(2)|ovary(1)	3		all_lung(227;0.00101)|Lung NSC(271;0.00278)|Renal(207;0.0112)|Ovarian(221;0.0129)|all_hematologic(139;0.211)|Esophageal squamous(248;0.247)		Epithelial(121;1.17e-46)|all cancers(144;6.87e-42)|Lung(261;0.0137)|LUSC - Lung squamous cell carcinoma(224;0.0187)		GGAAAGAAAGGAGAAATGGGG	0.512													13	22	---	---	---	---	PASS
COL4A3	1285	broad.mit.edu	37	2	228172619	228172619	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:228172619C>T	uc002vom.1	+	48	4608	c.4446C>T	c.(4444-4446)GCC>GCT	p.A1482A	COL4A3_uc002von.1_Silent_p.A1482A|COL4A3_uc002voo.1_Silent_p.A1482A|COL4A3_uc002vop.1_Intron|uc002voq.1_Intron|uc002vor.1_Intron|COL4A3_uc010fxf.1_5'UTR	NM_000091	NP_000082	Q01955	CO4A3_HUMAN	alpha 3 type IV collagen isoform 1 precursor	1482	Required for the anti-angiogenic activity of tumstatin.|Collagen IV NC1.				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)		ATCAACGAGCCCACGGACAAG	0.478													14	33	---	---	---	---	PASS
COL4A3	1285	broad.mit.edu	37	2	228175576	228175576	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:228175576C>T	uc002vom.1	+	51	5002	c.4840C>T	c.(4840-4842)CTA>TTA	p.L1614L	COL4A3_uc002von.1_Intron|COL4A3_uc002voo.1_Intron|COL4A3_uc002vop.1_Intron|uc002voq.1_Intron|uc002vor.1_Intron|COL4A3_uc010fxf.1_Silent_p.L30L	NM_000091	NP_000082	Q01955	CO4A3_HUMAN	alpha 3 type IV collagen isoform 1 precursor	1614	Required for the anti-tumor cell activity of tumstatin.|Collagen IV NC1.				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)		CAGCCCATTTCTAGAATGTCA	0.473													16	47	---	---	---	---	PASS
C2orf83	56918	broad.mit.edu	37	2	228476363	228476363	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:228476363G>A	uc002vph.2	-	3	435	c.200C>T	c.(199-201)CCA>CTA	p.P67L	C2orf83_uc010zlu.1_3'UTR	NM_020161	NP_064546	Q53S99	CB083_HUMAN	hypothetical protein LOC56918 isoform 1	67						membrane	folic acid binding|reduced folate carrier activity				0						TTTCTCAGATGGACTTAATAC	0.423													17	35	---	---	---	---	PASS
WDR69	164781	broad.mit.edu	37	2	228786214	228786214	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:228786214G>A	uc002vpn.1	+	12	1229	c.1150G>A	c.(1150-1152)GAG>AAG	p.E384K	WDR69_uc010zlw.1_Missense_Mutation_p.E369K|WDR69_uc002vpo.1_RNA	NM_178821	NP_849143	Q8N136	WDR69_HUMAN	WD repeat domain 69	384	WD 7.									breast(1)	1		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;1.22e-10)|all cancers(144;8.11e-08)|Lung(261;0.011)|LUSC - Lung squamous cell carcinoma(224;0.0148)		CCAGGTTCTTGAGGGGCACAC	0.438													28	38	---	---	---	---	PASS
SPHKAP	80309	broad.mit.edu	37	2	228846570	228846570	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:228846570C>T	uc002vpq.2	-	12	5013	c.4966G>A	c.(4966-4968)GAT>AAT	p.D1656N	SPHKAP_uc002vpp.2_Missense_Mutation_p.D1627N|SPHKAP_uc010zlx.1_Silent_p.*1485*	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	1656						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)		TGCACGACATCTAGAAACTAA	0.468													17	33	---	---	---	---	PASS
SPHKAP	80309	broad.mit.edu	37	2	228881929	228881929	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:228881929C>T	uc002vpq.2	-	7	3688	c.3641G>A	c.(3640-3642)CGG>CAG	p.R1214Q	SPHKAP_uc002vpp.2_Missense_Mutation_p.R1214Q|SPHKAP_uc010zlx.1_Missense_Mutation_p.R1214Q	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	1214						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)		CTGGCTGCTCCGTCTGGAGGA	0.577													22	41	---	---	---	---	PASS
SPHKAP	80309	broad.mit.edu	37	2	228882995	228882995	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:228882995C>T	uc002vpq.2	-	7	2622	c.2575G>A	c.(2575-2577)GGA>AGA	p.G859R	SPHKAP_uc002vpp.2_Missense_Mutation_p.G859R|SPHKAP_uc010zlx.1_Missense_Mutation_p.G859R	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	859						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)		GACCTTTGTCCTTCGGAAGAG	0.488													194	440	---	---	---	---	PASS
SPHKAP	80309	broad.mit.edu	37	2	228884579	228884579	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:228884579G>A	uc002vpq.2	-	7	1038	c.991C>T	c.(991-993)CAA>TAA	p.Q331*	SPHKAP_uc002vpp.2_Nonsense_Mutation_p.Q331*|SPHKAP_uc010zlx.1_Nonsense_Mutation_p.Q331*	NM_001142644	NP_001136116	Q2M3C7	SPKAP_HUMAN	sphingosine kinase type 1-interacting protein	331						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)		TTTTCCATTTGACCTTTAAAA	0.428													27	66	---	---	---	---	PASS
SP140	11262	broad.mit.edu	37	2	231157413	231157413	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:231157413G>A	uc002vql.2	+	20	1993	c.1878G>A	c.(1876-1878)ACG>ACA	p.T626T	SP140_uc010zma.1_RNA|SP140_uc002vqn.2_Silent_p.T512T|SP140_uc002vqm.2_Silent_p.T566T|SP140_uc010fxl.2_Silent_p.T599T	NM_007237	NP_009168	Q13342	LY10_HUMAN	SP140 nuclear body protein isoform 1	626	SAND.				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)		TCACCCCCACGGAATTTGAAA	0.507													30	62	---	---	---	---	PASS
SP140L	93349	broad.mit.edu	37	2	231256845	231256845	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:231256845C>T	uc010fxm.1	+	12	1099	c.1008C>T	c.(1006-1008)TTC>TTT	p.F336F	SP140L_uc010fxo.1_Silent_p.F108F	NM_138402	NP_612411	Q9H930	LY10L_HUMAN	SP140 nuclear body protein-like	336	SAND.					nucleus	DNA binding|metal ion binding			central_nervous_system(1)	1						GAAAATGGTTCACCCCCATGG	0.527													29	35	---	---	---	---	PASS
HTR2B	3357	broad.mit.edu	37	2	231973782	231973782	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:231973782C>T	uc002vro.2	-	4	1400	c.895G>A	c.(895-897)GAA>AAA	p.E299K	PSMD1_uc002vrm.1_Intron|PSMD1_uc010fxu.1_Intron|PSMD1_uc002vrn.1_Intron|HTR2B_uc010fxv.2_Missense_Mutation_p.E232K	NM_000867	NP_000858	P41595	5HT2B_HUMAN	5-hydroxytryptamine (serotonin) receptor 2B	299	Cytoplasmic (By similarity).				activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|calcium-mediated signaling|cardiac muscle hypertrophy|cellular response to calcium ion|cellular response to temperature stimulus|cGMP biosynthetic process|embryonic morphogenesis|ERK1 and ERK2 cascade|G-protein coupled receptor internalization|heart morphogenesis|intestine smooth muscle contraction|negative regulation of apoptosis|negative regulation of autophagy|neural crest cell migration|phosphatidylinositol 3-kinase cascade|phosphatidylinositol biosynthetic process|phosphorylation|positive regulation of cell division|positive regulation of cytokine production|positive regulation of cytokine secretion|positive regulation of endothelial cell proliferation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAP kinase activity|positive regulation of nitric-oxide synthase activity|protein kinase C signaling cascade|regulation of behavior|release of sequestered calcium ion into cytosol|response to drug|vasoconstriction	cytoplasm|integral to membrane|plasma membrane	calcium channel activity|drug binding|G-protein alpha-subunit binding|phosphatidylinositol phospholipase C activity|Ras GTPase activator activity|serotonin binding|serotonin receptor activity				0		Renal(207;0.025)|all_hematologic(139;0.094)|Acute lymphoblastic leukemia(138;0.164)|Medulloblastoma(418;0.232)		Epithelial(121;4.48e-11)|LUSC - Lung squamous cell carcinoma(224;0.0115)|Lung(119;0.0141)	Chlorprothixene(DB01239)|Eletriptan(DB00216)|Fenfluramine(DB00574)|Methotrimeprazine(DB01403)|Minaprine(DB00805)|Quetiapine(DB01224)|Sumatriptan(DB00669)|Tegaserod(DB01079)|Triflupromazine(DB00508)	ATAAGTGTTTCATCACCTGAG	0.468													38	74	---	---	---	---	PASS
MIR562	693147	broad.mit.edu	37	2	233037446	233037446	+	RNA	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:233037446C>T	hsa-mir-562|MI0003568	+			c.84C>T			DIS3L2_uc010fxz.2_Intron|DIS3L2_uc002vsm.3_Intron|DIS3L2_uc002vso.2_Intron																	0						catttgcactccctgtggcaa	0.000													6	23	---	---	---	---	PASS
CHRNG	1146	broad.mit.edu	37	2	233407197	233407197	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:233407197G>A	uc002vsx.1	+	6	592	c.571G>A	c.(571-573)GAG>AAG	p.E191K	CHRNG_uc010fye.1_Missense_Mutation_p.E139K	NM_005199	NP_005190	P07510	ACHG_HUMAN	cholinergic receptor, nicotinic, gamma	191	Extracellular (Potential).				muscle contraction	cell junction|postsynaptic membrane	acetylcholine receptor activity				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;6.39e-16)|BRCA - Breast invasive adenocarcinoma(100;0.00079)|LUSC - Lung squamous cell carcinoma(224;0.00757)|Lung(119;0.0086)		CCAGACCATCGAGTGGATTTT	0.572													8	33	---	---	---	---	PASS
TRPM8	79054	broad.mit.edu	37	2	234846100	234846100	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:234846100C>T	uc002vvh.2	+	4	335	c.295C>T	c.(295-297)CCT>TCT	p.P99S	TRPM8_uc010fyj.2_5'UTR|TRPM8_uc002vvi.3_Missense_Mutation_p.P49S|TRPM8_uc002vvj.3_Missense_Mutation_p.P22S	NM_024080	NP_076985	Q7Z2W7	TRPM8_HUMAN	transient receptor potential cation channel,	99	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)	CAAGGAATTTCCTACCGACGC	0.468													30	77	---	---	---	---	PASS
IQCA1	79781	broad.mit.edu	37	2	237406134	237406134	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:237406134G>A	uc002vvz.1	-						IQCA1_uc002vwb.2_Intron|IQCA1_uc002vwa.1_Intron|IQCA1_uc010zni.1_Intron	NM_024726	NP_079002	Q86XH1	IQCA1_HUMAN	IQ motif containing with AAA domain 1								ATP binding			ovary(1)	1						ATACATTCTGGGGGAAGAGAG	0.383													7	15	---	---	---	---	PASS
COL6A3	1293	broad.mit.edu	37	2	238247651	238247651	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:238247651C>T	uc002vwl.2	-						COL6A3_uc002vwo.2_Intron|COL6A3_uc010znj.1_Intron|COL6A3_uc002vwj.2_Intron	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor						axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		taattATAATCACTTACACTT	0.219													9	21	---	---	---	---	PASS
COL6A3	1293	broad.mit.edu	37	2	238266024	238266024	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:238266024C>T	uc002vwl.2	-	23	6833	c.6548G>A	c.(6547-6549)GGG>GAG	p.G2183E	COL6A3_uc002vwo.2_Missense_Mutation_p.G1977E|COL6A3_uc010znj.1_Missense_Mutation_p.G1576E|COL6A3_uc002vwp.1_5'Flank	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	2183	Triple-helical region.|Collagen-like 3.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		TCCATCTCTCCCTGGGACACC	0.498													72	157	---	---	---	---	PASS
COL6A3	1293	broad.mit.edu	37	2	238289675	238289675	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:238289675C>T	uc002vwl.2	-	5	2065	c.1780G>A	c.(1780-1782)GAG>AAG	p.E594K	COL6A3_uc002vwo.2_Missense_Mutation_p.E388K|COL6A3_uc010znj.1_Missense_Mutation_p.E187K|COL6A3_uc002vwq.2_Missense_Mutation_p.E388K|COL6A3_uc002vwr.2_Missense_Mutation_p.E187K|COL6A3_uc010znk.1_Missense_Mutation_p.E594K	NM_004369	NP_004360	P12111	CO6A3_HUMAN	alpha 3 type VI collagen isoform 1 precursor	594	VWFA 3.|Nonhelical region.				axon guidance|cell adhesion|muscle organ development	collagen type VI|extracellular space	serine-type endopeptidase inhibitor activity			ovary(8)|central_nervous_system(6)|skin(2)|upper_aerodigestive_tract(1)|pancreas(1)	18		Breast(86;0.000301)|Renal(207;0.000966)|all_hematologic(139;0.067)|Ovarian(221;0.0694)|all_lung(227;0.0943)|Melanoma(123;0.203)		Epithelial(121;1.23e-21)|OV - Ovarian serous cystadenocarcinoma(60;1.34e-10)|Kidney(56;5.71e-09)|KIRC - Kidney renal clear cell carcinoma(57;1.51e-07)|BRCA - Breast invasive adenocarcinoma(100;0.00025)|Lung(119;0.0142)|LUSC - Lung squamous cell carcinoma(224;0.034)		AAAGCGATCTCTTCCAGCTCA	0.582													15	25	---	---	---	---	PASS
RBM44	375316	broad.mit.edu	37	2	238725710	238725710	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:238725710C>T	uc002vxi.3	+	3	283	c.151C>T	c.(151-153)CCT>TCT	p.P51S		NM_001080504	NP_001073973	Q6ZP01	RBM44_HUMAN	RNA binding motif protein 44	50							nucleotide binding|RNA binding			ovary(4)	4		Breast(86;0.0042)|Renal(207;0.00571)|Ovarian(221;0.17)|all_hematologic(139;0.182)		Epithelial(121;3.74e-22)|OV - Ovarian serous cystadenocarcinoma(60;5.3e-11)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;0.000118)|Lung(119;0.0112)|LUSC - Lung squamous cell carcinoma(224;0.0266)		ATTGACTTTTCCTGATGATGA	0.294													20	40	---	---	---	---	PASS
PER2	8864	broad.mit.edu	37	2	239159302	239159302	+	Silent	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:239159302A>T	uc002vyc.2	-	21	3594	c.3357T>A	c.(3355-3357)ACT>ACA	p.T1119T	PER2_uc010znv.1_Silent_p.T1119T	NM_022817	NP_073728	O15055	PER2_HUMAN	period 2	1119					circadian rhythm|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding|signal transducer activity			upper_aerodigestive_tract(1)|breast(1)	2		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0423)|all_lung(227;0.114)|all_hematologic(139;0.158)|Melanoma(123;0.203)|Lung NSC(271;0.223)|Hepatocellular(293;0.244)		Epithelial(121;6.84e-24)|OV - Ovarian serous cystadenocarcinoma(60;9.73e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;6.77e-05)|Lung(119;0.00941)|LUSC - Lung squamous cell carcinoma(224;0.0161)		CTTCCATACCAGTGTTCATTT	0.438													8	26	---	---	---	---	PASS
PER2	8864	broad.mit.edu	37	2	239161815	239161815	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:239161815G>A	uc002vyc.2	-	19	3086	c.2849C>T	c.(2848-2850)CCC>CTC	p.P950L	PER2_uc010znv.1_Missense_Mutation_p.P950L	NM_022817	NP_073728	O15055	PER2_HUMAN	period 2	950	Pro-rich.				circadian rhythm|regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding|signal transducer activity			upper_aerodigestive_tract(1)|breast(1)	2		Breast(86;7.61e-05)|Renal(207;0.00183)|Ovarian(221;0.0423)|all_lung(227;0.114)|all_hematologic(139;0.158)|Melanoma(123;0.203)|Lung NSC(271;0.223)|Hepatocellular(293;0.244)		Epithelial(121;6.84e-24)|OV - Ovarian serous cystadenocarcinoma(60;9.73e-12)|Kidney(56;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(57;6.5e-08)|BRCA - Breast invasive adenocarcinoma(100;6.77e-05)|Lung(119;0.00941)|LUSC - Lung squamous cell carcinoma(224;0.0161)		GGTCCGGCTGGGGAACTCAGG	0.657													18	22	---	---	---	---	PASS
TRAF3IP1	26146	broad.mit.edu	37	2	239257465	239257465	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:239257465C>T	uc002vye.2	+	11	1462	c.1343C>T	c.(1342-1344)CCT>CTT	p.P448L	TRAF3IP1_uc002vyf.2_Missense_Mutation_p.P382L	NM_015650	NP_056465	Q8TDR0	MIPT3_HUMAN	TNF receptor-associated factor 3 interacting	448	DISC1-interaction domain.					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)		CCAGAAATTCCTAATGAGCTT	0.403													25	75	---	---	---	---	PASS
HDAC4	9759	broad.mit.edu	37	2	240078360	240078360	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:240078360G>A	uc002vyk.3	-	7	1513	c.721C>T	c.(721-723)CTT>TTT	p.L241F	HDAC4_uc010fyz.1_Missense_Mutation_p.L236F|HDAC4_uc010zoa.1_Missense_Mutation_p.L236F|HDAC4_uc010fza.2_Missense_Mutation_p.L241F|HDAC4_uc010fyy.2_Missense_Mutation_p.L193F|HDAC4_uc010znz.1_Missense_Mutation_p.L124F|HDAC4_uc010fzb.1_5'Flank	NM_006037	NP_006028	P56524	HDAC4_HUMAN	histone deacetylase 4	241	Interaction with MEF2A.				B cell differentiation|cardiac muscle hypertrophy in response to stress|chromatin remodeling|histone H3 deacetylation|histone H4 deacetylation|inflammatory response|negative regulation of glycolysis|negative regulation of myotube differentiation|negative regulation of sequence-specific DNA binding transcription factor activity|negative regulation of transcription from RNA polymerase II promoter|nervous system development|peptidyl-lysine deacetylation|positive regulation of cell proliferation|positive regulation of protein sumoylation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of protein binding|response to denervation involved in regulation of muscle adaptation|response to interleukin-1|transcription, DNA-dependent	histone deacetylase complex|transcriptional repressor complex	activating transcription factor binding|histone deacetylase activity (H3-K16 specific)|histone deacetylase binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|potassium ion binding|repressing transcription factor binding|zinc ion binding			breast(3)|skin(2)|ovary(1)	6		all_epithelial(40;1.45e-17)|Breast(86;1.53e-05)|Renal(207;0.000355)|all_lung(227;0.0121)|Ovarian(221;0.0183)|Lung NSC(271;0.0413)|Melanoma(123;0.0749)|all_hematologic(139;0.159)		Epithelial(121;6.38e-25)|OV - Ovarian serous cystadenocarcinoma(60;2.48e-12)|Kidney(56;6.04e-08)|KIRC - Kidney renal clear cell carcinoma(57;1.18e-06)|BRCA - Breast invasive adenocarcinoma(100;3.99e-05)|Lung(119;0.00942)|LUSC - Lung squamous cell carcinoma(224;0.04)		GTTTTCCTAAGAGGGAAGTCA	0.612													24	46	---	---	---	---	PASS
ANKMY1	51281	broad.mit.edu	37	2	241465144	241465144	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:241465144G>A	uc002vyz.1	-	6	1255	c.1026C>T	c.(1024-1026)TCC>TCT	p.S342S	ANKMY1_uc002vza.1_Silent_p.S201S|ANKMY1_uc010fzd.1_Silent_p.S431S|ANKMY1_uc002vzb.1_Silent_p.S201S|ANKMY1_uc002vzc.1_Silent_p.S201S|ANKMY1_uc002vzd.1_Silent_p.S201S|ANKMY1_uc010fze.1_Silent_p.S11S|ANKMY1_uc002vze.2_Silent_p.S103S	NM_016552	NP_057636	Q9P2S6	ANKY1_HUMAN	ankyrin repeat and MYND domain containing 1	342							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)		TGGGCTTGAAGGACTGGGCGG	0.582													8	27	---	---	---	---	PASS
CAPN10	11132	broad.mit.edu	37	2	241536129	241536129	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:241536129C>T	uc002vzk.1	+	9	1697	c.1513C>T	c.(1513-1515)CCC>TCC	p.P505S	CAPN10_uc002vzl.1_Intron|CAPN10_uc002vzm.1_Intron|CAPN10_uc002vzn.1_Missense_Mutation_p.P377S|CAPN10_uc002vzo.1_Intron|CAPN10_uc010fzg.1_Intron|CAPN10_uc002vzp.1_Intron|CAPN10_uc002vzq.1_Intron	NM_023083	NP_075571	Q9HC96	CAN10_HUMAN	calpain 10 isoform a	505					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)		GAACACCACCCCCGGGGCAGC	0.662													5	20	---	---	---	---	PASS
CAPN10	11132	broad.mit.edu	37	2	241536287	241536287	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:241536287C>T	uc002vzk.1	+	9	1855	c.1671C>T	c.(1669-1671)GTC>GTT	p.V557V	CAPN10_uc002vzl.1_Intron|CAPN10_uc002vzm.1_Intron|CAPN10_uc002vzn.1_Silent_p.V429V|CAPN10_uc002vzo.1_RNA|CAPN10_uc010fzg.1_Intron|CAPN10_uc002vzp.1_RNA|CAPN10_uc002vzq.1_Intron	NM_023083	NP_075571	Q9HC96	CAN10_HUMAN	calpain 10 isoform a	557	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)		CCCGCTGCGTCCGCATCACTC	0.672													5	14	---	---	---	---	PASS
KIF1A	547	broad.mit.edu	37	2	241689958	241689958	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:241689958G>A	uc002vzy.2	-	26	2708	c.2562C>T	c.(2560-2562)TTC>TTT	p.F854F	KIF1A_uc010fzk.2_Silent_p.F955F|KIF1A_uc002vzz.1_Silent_p.F955F	NM_004321	NP_004312	Q12756	KIF1A_HUMAN	axonal transport of synaptic vesicles	854					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)		TCAGGTACACGAAGGCCCTGG	0.647													8	18	---	---	---	---	PASS
CNTN4	152330	broad.mit.edu	37	3	2908551	2908551	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:2908551G>A	uc003bpc.2	+	7	791	c.570G>A	c.(568-570)GGG>GGA	p.G190G	CNTN4_uc003bpb.1_5'UTR|CNTN4_uc003bpd.1_Silent_p.G190G	NM_175607	NP_783200	Q8IWV2	CNTN4_HUMAN	contactin 4 isoform a precursor	190	Ig-like C2-type 2.				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)		CAGATGTTGGGAATTATACCT	0.408													30	17	---	---	---	---	PASS
LRRN1	57633	broad.mit.edu	37	3	3887225	3887225	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:3887225C>T	uc003bpt.3	+	2	1661	c.900C>T	c.(898-900)CTC>CTT	p.L300L	SUMF1_uc003bps.1_Intron	NM_020873	NP_065924	Q6UXK5	LRRN1_HUMAN	leucine rich repeat neuronal 1 precursor	300	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)		TGGGCGAGCTCGTTTCTGTCG	0.453													42	31	---	---	---	---	PASS
GRM7	2917	broad.mit.edu	37	3	7620869	7620869	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:7620869C>T	uc003bqm.2	+	8	2550	c.2276C>T	c.(2275-2277)TCC>TTC	p.S759F	GRM7_uc011ata.1_RNA|GRM7_uc011atb.1_RNA|GRM7_uc010hcf.2_RNA|GRM7_uc011atc.1_RNA|GRM7_uc010hcg.2_Missense_Mutation_p.S759F|GRM7_uc003bql.2_Missense_Mutation_p.S759F|GRM7_uc003bqn.1_Missense_Mutation_p.S342F|GRM7_uc010hch.1_Missense_Mutation_p.S270F	NM_000844	NP_000835	Q14831	GRM7_HUMAN	glutamate receptor, metabotropic 7 isoform a	759	Helical; Name=5; (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)	ATCATTTGCTCCTTGGGATAT	0.448													37	24	---	---	---	---	PASS
SETD5	55209	broad.mit.edu	37	3	9517345	9517345	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:9517345C>T	uc003brt.2	+	23	4334	c.3899C>T	c.(3898-3900)TCC>TTC	p.S1300F	SETD5_uc003bru.2_Missense_Mutation_p.S1202F|SETD5_uc003brv.2_Missense_Mutation_p.S1189F|SETD5_uc010hck.2_Missense_Mutation_p.S782F|SETD5_uc003brx.2_Missense_Mutation_p.S969F	NM_001080517	NP_001073986	Q9C0A6	SETD5_HUMAN	SET domain containing 5	1300	Ser-rich.									ovary(2)	2	Medulloblastoma(99;0.227)			OV - Ovarian serous cystadenocarcinoma(96;0.112)		ACGTCCTATTCCAGCCCCGCC	0.552													34	24	---	---	---	---	PASS
CRELD1	78987	broad.mit.edu	37	3	9986197	9986197	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:9986197C>T	uc003bug.2	+	11	1315	c.1197C>T	c.(1195-1197)GCC>GCT	p.A399A	CIDEC_uc003bto.2_Intron|CRELD1_uc003buf.2_3'UTR|CRELD1_uc003buh.2_Silent_p.A399A|CRELD1_uc003bui.2_Silent_p.A399A|CRELD1_uc003buj.2_RNA	NM_001077415	NP_001070883	Q96HD1	CREL1_HUMAN	cysteine-rich with EGF-like domains 1 isoform 3	399	Helical; (Potential).				cardiac septum development|endocardial cushion development	integral to membrane	calcium ion binding			ovary(1)	1						CTGTGGCGGCCATGACTGGCT	0.592													33	8	---	---	---	---	PASS
C3orf24	115795	broad.mit.edu	37	3	10146192	10146192	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:10146192C>T	uc003buz.2	-	2	492	c.267G>A	c.(265-267)AGG>AGA	p.R89R	C3orf24_uc003bva.1_Silent_p.R89R	NM_173472	NP_775743	Q96PS1	CC024_HUMAN	hypothetical protein LOC115795	89											0				OV - Ovarian serous cystadenocarcinoma(96;0.196)		GCTGGGGCTTCCTGACCAGTC	0.532													27	20	---	---	---	---	PASS
IRAK2	3656	broad.mit.edu	37	3	10242050	10242050	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:10242050C>T	uc003bve.1	+							NM_001570	NP_001561	O43187	IRAK2_HUMAN	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						ACCTTGTTTTCAGGGAAACCG	0.318													60	47	---	---	---	---	PASS
TATDN2	9797	broad.mit.edu	37	3	10290945	10290945	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:10290945C>A	uc003bvg.2	+	2	642	c.61C>A	c.(61-63)CGC>AGC	p.R21S	TATDN2_uc003bvf.2_Missense_Mutation_p.R21S|TATDN2_uc011atr.1_Missense_Mutation_p.R21S|TATDN2_uc011ats.1_RNA|TATDN2_uc011att.1_RNA	NM_014760	NP_055575	Q93075	TATD2_HUMAN	TatD DNase domain containing 2	21						nucleus	endodeoxyribonuclease activity, producing 5'-phosphomonoesters|metal ion binding			pancreas(2)	2						AGGGTGTCCCCGCAAGCGCAG	0.682													5	25	---	---	---	---	PASS
TATDN2	9797	broad.mit.edu	37	3	10312277	10312277	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:10312277C>T	uc003bvg.2	+	4	1992	c.1411C>T	c.(1411-1413)CCG>TCG	p.P471S	TATDN2_uc003bvf.2_Missense_Mutation_p.P471S|TATDN2_uc011atr.1_Missense_Mutation_p.P471S|TATDN2_uc011ats.1_RNA|TATDN2_uc011att.1_RNA	NM_014760	NP_055575	Q93075	TATD2_HUMAN	TatD DNase domain containing 2	471						nucleus	endodeoxyribonuclease activity, producing 5'-phosphomonoesters|metal ion binding			pancreas(2)	2						GGAGATGCCTCCGCGTCCTTG	0.527													21	21	---	---	---	---	PASS
GHRL	51738	broad.mit.edu	37	3	10331778	10331778	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:10331778G>A	uc010hdf.2	-	2	222	c.87C>T	c.(85-87)AGC>AGT	p.S29S	GHRLOS_uc011atx.1_Intron|GHRLOS_uc011aty.1_Intron|GHRLOS_uc011atz.1_Intron|GHRLOS_uc011aua.1_Intron|GHRLOS_uc010hdl.2_Intron|GHRLOS_uc011aub.1_Intron|GHRLOS_uc010hdm.2_Intron|GHRLOS_uc011auc.1_Intron|GHRLOS_uc011aud.1_Intron|GHRLOS_uc011aue.1_Intron|GHRLOS_uc011auf.1_Intron|GHRLOS_uc011aug.1_Intron|GHRLOS_uc011auh.1_Intron|GHRLOS_uc011aui.1_Intron|GHRLOS_uc011auj.1_Intron|GHRLOS_uc010hdn.2_Intron|GHRL_uc010hda.1_5'Flank|GHRL_uc010hdb.1_5'Flank|GHRL_uc003bvj.1_Silent_p.S29S|GHRL_uc003bvk.3_RNA|GHRL_uc010hdk.2_Intron|GHRL_uc010hdc.2_Intron|GHRL_uc010hdd.2_Intron|GHRL_uc010hde.2_Silent_p.S29S|GHRL_uc010hdi.2_Silent_p.S29S|GHRL_uc010hdh.2_Silent_p.S29S|GHRL_uc010hdj.2_Intron|GHRLOS_uc011auk.1_Intron	NM_016362	NP_057446	Q9UBU3	GHRL_HUMAN	ghrelin/obestatin isoform 1 preproprotein	29					actin polymerization or depolymerization|activation of MAPK activity|adult feeding behavior|cartilage development|cortisol secretion|decidualization|dendrite development|elevation of cytosolic calcium ion concentration|G-protein coupled receptor protein signaling pathway|glucose metabolic process|growth hormone secretion|hormone-mediated signaling pathway|negative regulation of angiogenesis|negative regulation of circadian sleep/wake cycle, REM sleep|negative regulation of endothelial cell proliferation|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 circadian sleep/wake cycle, non-REM sleep|positive regulation of corticotropin secretion|positive regulation of cortisol secretion|positive regulation of growth hormone secretion|positive regulation of insulin secretion|positive regulation of synaptogenesis|response to estrogen stimulus	axon|endoplasmic reticulum lumen|extracellular space|stored secretory granule	ghrelin receptor binding|growth hormone-releasing hormone activity|protein tyrosine kinase activator activity			ovary(1)	1						GGTGTTCAGGGCTCAGGAAGC	0.483													6	6	---	---	---	---	PASS
MKRN2	23609	broad.mit.edu	37	3	12611664	12611664	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:12611664C>T	uc003bxd.2	+	3	306	c.250C>T	c.(250-252)CCT>TCT	p.P84S	MKRN2_uc003bxe.2_Missense_Mutation_p.P82S|MKRN2_uc011aus.1_Missense_Mutation_p.P41S	NM_014160	NP_054879	Q9H000	MKRN2_HUMAN	makorin ring finger protein 2	84						intracellular	ligase activity|nucleic acid binding|zinc ion binding				0						TCCTCACCCTCCTTCCGAGGT	0.537													15	12	---	---	---	---	PASS
MKRN2	23609	broad.mit.edu	37	3	12611665	12611665	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:12611665C>T	uc003bxd.2	+	3	307	c.251C>T	c.(250-252)CCT>CTT	p.P84L	MKRN2_uc003bxe.2_Missense_Mutation_p.P82L|MKRN2_uc011aus.1_Missense_Mutation_p.P41L	NM_014160	NP_054879	Q9H000	MKRN2_HUMAN	makorin ring finger protein 2	84						intracellular	ligase activity|nucleic acid binding|zinc ion binding				0						CCTCACCCTCCTTCCGAGGTC	0.532													15	12	---	---	---	---	PASS
C3orf20	84077	broad.mit.edu	37	3	14798904	14798904	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:14798904C>T	uc003byy.2	+	13	2371	c.1967C>T	c.(1966-1968)CCC>CTC	p.P656L	C3orf20_uc003byz.2_Missense_Mutation_p.P534L|C3orf20_uc003bza.2_Missense_Mutation_p.P534L|C3orf20_uc003bzb.1_Missense_Mutation_p.P157L|C3orf20_uc011avj.1_5'UTR	NM_032137	NP_115513	Q8ND61	CC020_HUMAN	hypothetical protein LOC84077	656						cytoplasm|integral to membrane				ovary(3)|skin(1)	4						GGGCGCAGCCCCACCAGGTGG	0.667													7	11	---	---	---	---	PASS
FGD5	152273	broad.mit.edu	37	3	14862877	14862877	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:14862877C>T	uc003bzc.2	+	1	2409	c.2299C>T	c.(2299-2301)CCC>TCC	p.P767S	FGD5_uc011avk.1_Missense_Mutation_p.P767S	NM_152536	NP_689749	Q6ZNL6	FGD5_HUMAN	FYVE, RhoGEF and PH domain containing 5	767					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(3)|kidney(1)|pancreas(1)	5						CATCTCCTTCCCCAGCGCTGA	0.597													81	66	---	---	---	---	PASS
NR2C2	7182	broad.mit.edu	37	3	15064743	15064743	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:15064743G>T	uc003bzj.3	+	6	810	c.593G>T	c.(592-594)CGG>CTG	p.R198L	NR2C2_uc003bzi.2_Missense_Mutation_p.R217L	NM_003298	NP_003289	P49116	NR2C2_HUMAN	nuclear receptor subfamily 2, group C, member 2	198					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						GATGTGCAACGGGAGAAACCA	0.423													4	46	---	---	---	---	PASS
ZFYVE20	64145	broad.mit.edu	37	3	15131933	15131933	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:15131933G>A	uc003bzm.1	-	5	876	c.262C>T	c.(262-264)CCT>TCT	p.P88S	ZFYVE20_uc010hek.1_Missense_Mutation_p.P88S|ZFYVE20_uc011avn.1_Missense_Mutation_p.P88S	NM_022340	NP_071735	Q9H1K0	RBNS5_HUMAN	FYVE-finger-containing Rab5 effector protein	88					blood coagulation|endosome transport|protein transport	early endosome membrane|plasma membrane	protein binding|zinc ion binding			skin(2)	2						CACATGTAAGGATCAACCCCT	0.333													40	27	---	---	---	---	PASS
CAPN7	23473	broad.mit.edu	37	3	15288955	15288955	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:15288955G>T	uc003bzn.2	+	19	2465	c.2195G>T	c.(2194-2196)CGA>CTA	p.R732L		NM_014296	NP_055111	Q9Y6W3	CAN7_HUMAN	calpain 7	732	Domain N.				proteolysis	nucleus	calcium-dependent cysteine-type endopeptidase activity			ovary(1)	1						ATTGAGCTACGAGGACCAAGG	0.294													4	70	---	---	---	---	PASS
PLCL2	23228	broad.mit.edu	37	3	17051498	17051498	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:17051498C>T	uc011awc.1	+	5	741	c.636C>T	c.(634-636)GTC>GTT	p.V212V	PLCL2_uc010het.1_Silent_p.V94V|PLCL2_uc011awd.1_Silent_p.V94V	NM_001144382	NP_001137854	Q9UPR0	PLCL2_HUMAN	phospholipase C-like 2 isoform 1	220	PH.				intracellular signal transduction|lipid metabolic process	cytoplasm	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			skin(2)|ovary(1)|lung(1)	4						CGTTTTCCGTCATATATGGAG	0.413													43	34	---	---	---	---	PASS
KAT2B	8850	broad.mit.edu	37	3	20178441	20178441	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:20178441G>T	uc003cbq.2	+	12	2203	c.1757G>T	c.(1756-1758)GGA>GTA	p.G586V	hsa-mir-3135|MI0014156_5'Flank	NM_003884	NP_003875	Q92831	KAT2B_HUMAN	K(lysine) acetyltransferase 2B	586	N-acetyltransferase.				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						CAGGGCTATGGAACACACCTG	0.343													18	12	---	---	---	---	PASS
THRB	7068	broad.mit.edu	37	3	24164475	24164475	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:24164475C>A	uc003ccx.3	-	11	1635	c.1286G>T	c.(1285-1287)CGG>CTG	p.R429L	THRB_uc010hfe.2_Missense_Mutation_p.R429L|THRB_uc003ccy.3_Missense_Mutation_p.R429L|THRB_uc003ccz.3_Missense_Mutation_p.R424L	NM_001128176	NP_001121648	P10828	THB_HUMAN	thyroid hormone receptor, beta	429	Ligand-binding.|Interaction with NR2F6.		R -> Q (in PRTH).		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)	TCCTATCATCCGCAGATCTGT	0.493													4	49	---	---	---	---	PASS
GADL1	339896	broad.mit.edu	37	3	30827866	30827866	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:30827866C>T	uc003cep.2	-	13	1330	c.1283G>A	c.(1282-1284)GGA>GAA	p.G428E		NM_207359	NP_997242	Q6ZQY3	GADL1_HUMAN	glutamate decarboxylase-like 1	428					carboxylic acid metabolic process		carboxy-lyase activity|pyridoxal phosphate binding				0					Pyridoxal Phosphate(DB00114)	TAACTTGAATCCTTCTCTTTT	0.299													8	12	---	---	---	---	PASS
GADL1	339896	broad.mit.edu	37	3	30827867	30827867	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:30827867C>T	uc003cep.2	-	13	1329	c.1282G>A	c.(1282-1284)GGA>AGA	p.G428R		NM_207359	NP_997242	Q6ZQY3	GADL1_HUMAN	glutamate decarboxylase-like 1	428					carboxylic acid metabolic process		carboxy-lyase activity|pyridoxal phosphate binding				0					Pyridoxal Phosphate(DB00114)	AACTTGAATCCTTCTCTTTTC	0.299													8	13	---	---	---	---	PASS
STAC	6769	broad.mit.edu	37	3	36484932	36484932	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:36484932G>A	uc003cgh.1	+	2	227	c.188G>A	c.(187-189)CGA>CAA	p.R63Q	STAC_uc010hgd.1_RNA|STAC_uc011aya.1_Missense_Mutation_p.R63Q	NM_003149	NP_003140	Q99469	STAC_HUMAN	SH3 and cysteine rich domain	63					intracellular signal transduction	cytoplasm|soluble fraction	metal ion binding			skin(2)|ovary(1)|pancreas(1)	4						TTCTTCCAGCGAACCAACAGC	0.512													25	15	---	---	---	---	PASS
DCLK3	85443	broad.mit.edu	37	3	36759619	36759619	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:36759619G>A	uc003cgi.2	-	4	2126	c.1635C>T	c.(1633-1635)ATC>ATT	p.I545I		NM_033403	NP_208382	Q9C098	DCLK3_HUMAN	doublecortin-like kinase 3	545	Protein kinase.					cytoplasm|nucleus	ATP binding|protein serine/threonine kinase activity			lung(3)|large_intestine(2)|breast(1)|skin(1)|ovary(1)|kidney(1)	9						CACACAGCAGGATATAGAGGA	0.572													71	62	---	---	---	---	PASS
GOLGA4	2803	broad.mit.edu	37	3	37376547	37376547	+	Missense_Mutation	SNP	C	T	T	rs143296928	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:37376547C>T	uc003cgv.2	+	17	6500	c.6196C>T	c.(6196-6198)CGT>TGT	p.R2066C	GOLGA4_uc003cgw.2_Missense_Mutation_p.R2088C|GOLGA4_uc010hgs.2_Intron|GOLGA4_uc003cgx.2_Missense_Mutation_p.R1947C	NM_002078	NP_002069	Q13439	GOGA4_HUMAN	golgi autoantigen, golgin subfamily a, 4	2066	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						CCTAAAGGCTCGTGAAGAAGA	0.368													9	4	---	---	---	---	PASS
ITGA9	3680	broad.mit.edu	37	3	37522968	37522968	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:37522968C>T	uc003chd.2	+						ITGA9_uc003chc.2_Intron	NM_002207	NP_002198	Q13797	ITA9_HUMAN	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)		GCTCTCTATCCCTTTAGGCCT	0.517													46	22	---	---	---	---	PASS
PLCD1	5333	broad.mit.edu	37	3	38052853	38052853	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:38052853G>A	uc003chn.2	-	5	766	c.642C>T	c.(640-642)ATC>ATT	p.I214I	PLCD1_uc003chm.2_Silent_p.I235I	NM_006225	NP_006216	P51178	PLCD1_HUMAN	phospholipase C, delta 1 isoform 2	214					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)		AGGTGCGGTCGATCTCCACCC	0.642													16	14	---	---	---	---	PASS
XYLB	9942	broad.mit.edu	37	3	38401830	38401830	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:38401830G>A	uc003cic.2	+	3	250	c.141G>A	c.(139-141)GGG>GGA	p.G47G	XYLB_uc011ayp.1_Intron|XYLB_uc003cid.1_5'UTR	NM_005108	NP_005099	O75191	XYLB_HUMAN	xylulokinase	47					D-xylose metabolic process|generation of precursor metabolites and energy|xylulose catabolic process		ATP binding|xylulokinase activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.00372)|Kidney(284;0.00405)		GTTCTTGCAGGACTCAGGGTG	0.512													28	26	---	---	---	---	PASS
EXOG	9941	broad.mit.edu	37	3	38539252	38539252	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:38539252C>T	uc003cih.2	+	2	392	c.296C>T	c.(295-297)TCC>TTC	p.S99F	EXOG_uc010hhg.2_Intron|EXOG_uc011ayq.1_Intron|EXOG_uc003cij.2_5'UTR|EXOG_uc010hhd.2_Intron|EXOG_uc010hhe.2_Intron|EXOG_uc003cik.2_5'UTR|EXOG_uc010hhf.2_5'UTR|EXOG_uc003cii.2_Intron	NM_005107	NP_005098	Q9Y2C4	EXOG_HUMAN	endo/exonuclease (5'-3'), endonuclease G-like	99						mitochondrial inner membrane	endonuclease activity|metal ion binding|nucleic acid binding				0						GAACATATTTCCAAAAGCAAG	0.368													29	21	---	---	---	---	PASS
EXOG	9941	broad.mit.edu	37	3	38539253	38539253	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:38539253C>T	uc003cih.2	+	2	393	c.297C>T	c.(295-297)TCC>TCT	p.S99S	EXOG_uc010hhg.2_Intron|EXOG_uc011ayq.1_Intron|EXOG_uc003cij.2_5'UTR|EXOG_uc010hhd.2_Intron|EXOG_uc010hhe.2_Intron|EXOG_uc003cik.2_5'UTR|EXOG_uc010hhf.2_5'UTR|EXOG_uc003cii.2_Intron	NM_005107	NP_005098	Q9Y2C4	EXOG_HUMAN	endo/exonuclease (5'-3'), endonuclease G-like	99						mitochondrial inner membrane	endonuclease activity|metal ion binding|nucleic acid binding				0						AACATATTTCCAAAAGCAAGA	0.363													28	21	---	---	---	---	PASS
SCN5A	6331	broad.mit.edu	37	3	38645521	38645521	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:38645521G>A	uc003cio.2	-	12	1766	c.1572C>T	c.(1570-1572)TCC>TCT	p.S524S	SCN5A_uc003cin.2_Silent_p.S524S|SCN5A_uc003cil.3_Silent_p.S524S|SCN5A_uc010hhi.2_Silent_p.S524S|SCN5A_uc010hhk.2_Silent_p.S524S|SCN5A_uc011ayr.1_Silent_p.S524S|SCN5A_uc010hhj.1_Silent_p.S135S	NM_198056	NP_932173	Q14524	SCN5A_HUMAN	voltage-gated sodium channel type V alpha	524					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)	TCCCGCGGCTGGAACGTGGCT	0.557													5	2	---	---	---	---	PASS
SCN10A	6336	broad.mit.edu	37	3	38768417	38768417	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:38768417G>A	uc003ciq.2	-	16	2767	c.2767C>T	c.(2767-2769)CGT>TGT	p.R923C		NM_006514	NP_006505	Q9Y5Y9	SCNAA_HUMAN	sodium channel, voltage-gated, type X, alpha	923					sensory perception	voltage-gated sodium channel complex				ovary(5)|skin(3)|large_intestine(1)|kidney(1)	10				KIRC - Kidney renal clear cell carcinoma(284;0.0769)|Kidney(284;0.0945)	Benzocaine(DB01086)|Bupivacaine(DB00297)|Chloroprocaine(DB01161)|Cocaine(DB00907)|Dibucaine(DB00527)|Dyclonine(DB00645)|Hexylcaine(DB00473)|Levobupivacaine(DB01002)|Lidocaine(DB00281)|Mepivacaine(DB00961)|Oxybuprocaine(DB00892)|Procaine(DB00721)|Proparacaine(DB00807)|Ropivacaine(DB00296)	TGTTTGGTACGATGGCCAAAG	0.587													40	33	---	---	---	---	PASS
SCN11A	11280	broad.mit.edu	37	3	38921496	38921496	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:38921496C>T	uc011ays.1	-	19	3537	c.3338G>A	c.(3337-3339)GGA>GAA	p.G1113E	SCN11A_uc010hhn.1_Missense_Mutation_p.G191E	NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	1113	Helical; Name=S2 of repeat III; (By similarity).|III.				response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	CTTTCCAAATCCGAAGGCTAC	0.398													8	18	---	---	---	---	PASS
SCN11A	11280	broad.mit.edu	37	3	38991823	38991823	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:38991823G>A	uc011ays.1	-	1	230	c.31C>T	c.(31-33)CCA>TCA	p.P11S		NM_014139	NP_054858	Q9UI33	SCNBA_HUMAN	sodium channel, voltage-gated, type XI, alpha	11					response to drug	voltage-gated sodium channel complex	voltage-gated sodium channel activity			skin(6)|ovary(1)|haematopoietic_and_lymphoid_tissue(1)|pancreas(1)	9				Kidney(284;0.00202)|KIRC - Kidney renal clear cell carcinoma(284;0.00226)	Cocaine(DB00907)	CGCTCATCTGGAAAGATTACT	0.498													50	24	---	---	---	---	PASS
XIRP1	165904	broad.mit.edu	37	3	39228798	39228798	+	Silent	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:39228798G>T	uc003cjk.1	-	2	2360	c.2139C>A	c.(2137-2139)CCC>CCA	p.P713P	XIRP1_uc003cji.2_Silent_p.P713P|XIRP1_uc003cjj.2_Intron	NM_194293	NP_919269	Q702N8	XIRP1_HUMAN	xin actin-binding repeat containing 1	713							actin binding			ovary(4)|breast(2)|central_nervous_system(1)|pancreas(1)	8				KIRC - Kidney renal clear cell carcinoma(284;0.0517)|Kidney(284;0.065)		CGATTACCCGGGGCTCCTGTT	0.572													4	22	---	---	---	---	PASS
ENTPD3	956	broad.mit.edu	37	3	40433626	40433626	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:40433626C>T	uc003ckd.3	+	3	245	c.153C>T	c.(151-153)CTC>CTT	p.L51L	ENTPD3_uc010hhy.2_Silent_p.L51L|uc003cke.3_RNA	NM_001248	NP_001239	O75355	ENTP3_HUMAN	ectonucleoside triphosphate diphosphohydrolase	51	Extracellular (Potential).					integral to membrane	ATP binding|hydrolase activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0605)|Kidney(284;0.0758)		AAGAGGTCCTCCCTCCAGGAC	0.448													26	31	---	---	---	---	PASS
ENTPD3	956	broad.mit.edu	37	3	40433627	40433627	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:40433627C>T	uc003ckd.3	+	3	246	c.154C>T	c.(154-156)CCT>TCT	p.P52S	ENTPD3_uc010hhy.2_Missense_Mutation_p.P52S|uc003cke.3_RNA	NM_001248	NP_001239	O75355	ENTP3_HUMAN	ectonucleoside triphosphate diphosphohydrolase	52	Extracellular (Potential).					integral to membrane	ATP binding|hydrolase activity			ovary(1)	1				KIRC - Kidney renal clear cell carcinoma(284;0.0605)|Kidney(284;0.0758)		AGAGGTCCTCCCTCCAGGACT	0.453													25	29	---	---	---	---	PASS
CTNNB1	1499	broad.mit.edu	37	3	41275037	41275037	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:41275037C>T	uc010hia.1	+	10	1359	c.1203C>T	c.(1201-1203)CTC>CTT	p.L401L	CTNNB1_uc003ckp.2_Silent_p.L401L|CTNNB1_uc003ckq.2_Silent_p.L401L|CTNNB1_uc003ckr.2_Silent_p.L401L|CTNNB1_uc011azf.1_Silent_p.L394L|CTNNB1_uc011azg.1_Silent_p.L329L|CTNNB1_uc003cks.2_Silent_p.L4L|CTNNB1_uc003ckt.1_5'Flank	NM_001904	NP_001895	P35222	CTNB1_HUMAN	beta-catenin	401	ARM 7.				adherens junction assembly|androgen receptor signaling pathway|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway involved in negative regulation of apoptosis|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell-cell adhesion|cell-matrix adhesion|cellular component disassembly involved in apoptosis|cellular response to growth factor stimulus|cellular response to indole-3-methanol|central nervous system vasculogenesis|cytoskeletal anchoring at plasma membrane|determination of dorsal/ventral asymmetry|dorsal/ventral axis specification|ectoderm development|embryonic axis specification|embryonic foregut morphogenesis|embryonic leg joint morphogenesis|endodermal cell fate commitment|endothelial tube morphogenesis|epithelial to mesenchymal transition|gastrulation with mouth forming second|glial cell fate determination|hair follicle morphogenesis|hair follicle placode formation|hindbrain development|liver development|lung cell differentiation|lung induction|lung-associated mesenchyme development|male genitalia development|mesenchymal cell proliferation involved in lung development|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of osteoclast differentiation|negative regulation of transcription from RNA polymerase II promoter|nephron tubule formation|odontogenesis of dentine-containing tooth|oocyte development|pancreas development|positive regulation of anti-apoptosis|positive regulation of apoptosis|positive regulation of branching involved in lung morphogenesis|positive regulation of epithelial cell proliferation involved in prostate gland development|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of muscle cell differentiation|positive regulation of osteoblast differentiation|positive regulation of transcription from RNA polymerase II promoter|protein localization at cell surface|proximal/distal pattern formation|regulation of angiogenesis|regulation of calcium ion import|regulation of centriole-centriole cohesion|regulation of centromeric sister chromatid cohesion|regulation of fibroblast proliferation|regulation of nephron tubule epithelial cell differentiation|regulation of protein localization at cell surface|regulation of smooth muscle cell proliferation|regulation of T cell proliferation|renal inner medulla development|renal outer medulla development|renal vesicle formation|response to drug|response to estradiol stimulus|Schwann cell proliferation|smooth muscle cell differentiation|synapse organization|synaptic vesicle transport|T cell differentiation in thymus|thymus development|trachea formation	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin-TCF7L2 complex|catenin complex|cell cortex|cell-substrate adherens junction|centrosome|dendritic shaft|desmosome|fascia adherens|internal side of plasma membrane|lamellipodium|lateral plasma membrane|microvillus membrane|perinuclear region of cytoplasm|protein-DNA complex|synapse|transcription factor complex|Z disc|zonula adherens	alpha-catenin binding|androgen receptor binding|cadherin binding|estrogen receptor binding|I-SMAD binding|ion channel binding|protein binding|protein C-terminus binding|protein kinase binding|protein phosphatase binding|R-SMAD binding|RPTP-like protein binding|signal transducer activity|specific RNA polymerase II transcription factor activity|structural molecule activity|transcription coactivator activity|transcription regulatory region DNA binding		CTNNB1/PLAG1(60)	liver(806)|soft_tissue(609)|large_intestine(243)|endometrium(222)|kidney(172)|stomach(157)|central_nervous_system(139)|ovary(104)|skin(97)|pancreas(91)|adrenal_gland(85)|pituitary(81)|salivary_gland(62)|haematopoietic_and_lymphoid_tissue(57)|thyroid(55)|biliary_tract(41)|lung(38)|prostate(24)|bone(20)|small_intestine(17)|cervix(9)|parathyroid(9)|urinary_tract(8)|breast(7)|oesophagus(5)|NS(3)|pleura(2)|upper_aerodigestive_tract(2)|eye(1)	3166				KIRC - Kidney renal clear cell carcinoma(284;0.0028)|Kidney(284;0.00294)	Lithium(DB01356)	TGGAAGGTCTCCTTGGGACTC	0.408		15	H|Mis|T	PLAG1	colorectal|cvarian| hepatoblastoma|others|pleomorphic salivary adenoma				Pilomatrixoma_Familial_Clustering_of				31	29	---	---	---	---	PASS
CTNNB1	1499	broad.mit.edu	37	3	41275038	41275038	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:41275038C>T	uc010hia.1	+	10	1360	c.1204C>T	c.(1204-1206)CTT>TTT	p.L402F	CTNNB1_uc003ckp.2_Missense_Mutation_p.L402F|CTNNB1_uc003ckq.2_Missense_Mutation_p.L402F|CTNNB1_uc003ckr.2_Missense_Mutation_p.L402F|CTNNB1_uc011azf.1_Missense_Mutation_p.L395F|CTNNB1_uc011azg.1_Missense_Mutation_p.L330F|CTNNB1_uc003cks.2_Missense_Mutation_p.L5F|CTNNB1_uc003ckt.1_5'Flank	NM_001904	NP_001895	P35222	CTNB1_HUMAN	beta-catenin	402	ARM 7.				adherens junction assembly|androgen receptor signaling pathway|branching involved in ureteric bud morphogenesis|canonical Wnt receptor signaling pathway involved in negative regulation of apoptosis|canonical Wnt receptor signaling pathway involved in positive regulation of epithelial to mesenchymal transition|cell-cell adhesion|cell-matrix adhesion|cellular component disassembly involved in apoptosis|cellular response to growth factor stimulus|cellular response to indole-3-methanol|central nervous system vasculogenesis|cytoskeletal anchoring at plasma membrane|determination of dorsal/ventral asymmetry|dorsal/ventral axis specification|ectoderm development|embryonic axis specification|embryonic foregut morphogenesis|embryonic leg joint morphogenesis|endodermal cell fate commitment|endothelial tube morphogenesis|epithelial to mesenchymal transition|gastrulation with mouth forming second|glial cell fate determination|hair follicle morphogenesis|hair follicle placode formation|hindbrain development|liver development|lung cell differentiation|lung induction|lung-associated mesenchyme development|male genitalia development|mesenchymal cell proliferation involved in lung development|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of cell proliferation|negative regulation of chondrocyte differentiation|negative regulation of heart induction by canonical Wnt receptor signaling pathway|negative regulation of osteoclast differentiation|negative regulation of transcription from RNA polymerase II promoter|nephron tubule formation|odontogenesis of dentine-containing tooth|oocyte development|pancreas development|positive regulation of anti-apoptosis|positive regulation of apoptosis|positive regulation of branching involved in lung morphogenesis|positive regulation of epithelial cell proliferation involved in prostate gland development|positive regulation of fibroblast growth factor receptor signaling pathway|positive regulation of heparan sulfate proteoglycan biosynthetic process|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of MAPKKK cascade|positive regulation of muscle cell differentiation|positive regulation of osteoblast differentiation|positive regulation of transcription from RNA polymerase II promoter|protein localization at cell surface|proximal/distal pattern formation|regulation of angiogenesis|regulation of calcium ion import|regulation of centriole-centriole cohesion|regulation of centromeric sister chromatid cohesion|regulation of fibroblast proliferation|regulation of nephron tubule epithelial cell differentiation|regulation of protein localization at cell surface|regulation of smooth muscle cell proliferation|regulation of T cell proliferation|renal inner medulla development|renal outer medulla development|renal vesicle formation|response to drug|response to estradiol stimulus|Schwann cell proliferation|smooth muscle cell differentiation|synapse organization|synaptic vesicle transport|T cell differentiation in thymus|thymus development|trachea formation	APC-Axin-1-beta-catenin complex|Axin-APC-beta-catenin-GSK3B complex|beta-catenin-TCF7L2 complex|catenin complex|cell cortex|cell-substrate adherens junction|centrosome|dendritic shaft|desmosome|fascia adherens|internal side of plasma membrane|lamellipodium|lateral plasma membrane|microvillus membrane|perinuclear region of cytoplasm|protein-DNA complex|synapse|transcription factor complex|Z disc|zonula adherens	alpha-catenin binding|androgen receptor binding|cadherin binding|estrogen receptor binding|I-SMAD binding|ion channel binding|protein binding|protein C-terminus binding|protein kinase binding|protein phosphatase binding|R-SMAD binding|RPTP-like protein binding|signal transducer activity|specific RNA polymerase II transcription factor activity|structural molecule activity|transcription coactivator activity|transcription regulatory region DNA binding		CTNNB1/PLAG1(60)	liver(806)|soft_tissue(609)|large_intestine(243)|endometrium(222)|kidney(172)|stomach(157)|central_nervous_system(139)|ovary(104)|skin(97)|pancreas(91)|adrenal_gland(85)|pituitary(81)|salivary_gland(62)|haematopoietic_and_lymphoid_tissue(57)|thyroid(55)|biliary_tract(41)|lung(38)|prostate(24)|bone(20)|small_intestine(17)|cervix(9)|parathyroid(9)|urinary_tract(8)|breast(7)|oesophagus(5)|NS(3)|pleura(2)|upper_aerodigestive_tract(2)|eye(1)	3166				KIRC - Kidney renal clear cell carcinoma(284;0.0028)|Kidney(284;0.00294)	Lithium(DB01356)	GGAAGGTCTCCTTGGGACTCT	0.408		15	H|Mis|T	PLAG1	colorectal|cvarian| hepatoblastoma|others|pleomorphic salivary adenoma				Pilomatrixoma_Familial_Clustering_of				32	28	---	---	---	---	PASS
HHATL	57467	broad.mit.edu	37	3	42738546	42738546	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:42738546C>T	uc003clw.2	-	9	1104	c.957G>A	c.(955-957)CTG>CTA	p.L319L	HHATL_uc003clx.2_Silent_p.L319L	NM_020707	NP_065758	Q9HCP6	HHATL_HUMAN	hedgehog acyltransferase-like	319					negative regulation of N-terminal protein palmitoylation	endoplasmic reticulum membrane|integral to membrane|perinuclear region of cytoplasm				ovary(3)	3				KIRC - Kidney renal clear cell carcinoma(284;0.215)		GGGGTGGGTCCAGGTGGTCGA	0.622													12	8	---	---	---	---	PASS
ABHD5	51099	broad.mit.edu	37	3	43759155	43759155	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:43759155C>T	uc003cmx.2	+							NM_016006	NP_057090	Q8WTS1	ABHD5_HUMAN	abhydrolase domain containing 5						cell differentiation|fatty acid metabolic process|negative regulation of sequestering of triglyceride|phosphatidic acid biosynthetic process|positive regulation of triglyceride catabolic process|triglyceride catabolic process	cytosol|lipid particle	1-acylglycerol-3-phosphate O-acyltransferase activity|lysophosphatidic acid acyltransferase activity			ovary(1)	1		Renal(3;0.0134)		KIRC - Kidney renal clear cell carcinoma(197;0.0546)|Kidney(197;0.0687)		TTCTCCTTGCCGTTAAAGTGG	0.403													13	10	---	---	---	---	PASS
ZNF197	10168	broad.mit.edu	37	3	44670823	44670823	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:44670823C>T	uc003cnm.2	+	2	383	c.177C>T	c.(175-177)GCC>GCT	p.A59A	ZNF197_uc003cnn.2_Silent_p.A59A|ZNF197_uc003cno.2_RNA|ZNF197_uc003cnp.2_Silent_p.A59A	NM_006991	NP_008922	O14709	ZN197_HUMAN	zinc finger protein 197 isoform 1	59	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(3)|skin(1)	4				KIRC - Kidney renal clear cell carcinoma(197;0.0478)|Kidney(197;0.0598)		CCCAGGAAGCCCTGAGCCGGC	0.572													36	23	---	---	---	---	PASS
LRRC2	79442	broad.mit.edu	37	3	46568959	46568959	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:46568959C>G	uc010hji.2	-	7	1250	c.886G>C	c.(886-888)GTG>CTG	p.V296L	LRRC2_uc003cpu.3_Missense_Mutation_p.V296L	NM_024512	NP_078788	Q9BYS8	LRRC2_HUMAN	leucine rich repeat containing 2	296	LRR 8.									ovary(1)	1		Ovarian(412;0.0563)		OV - Ovarian serous cystadenocarcinoma(275;6.37e-05)|BRCA - Breast invasive adenocarcinoma(193;0.00133)|KIRC - Kidney renal clear cell carcinoma(197;0.0214)|Kidney(197;0.0254)		GGGAGCTCCACCAAATGGTCC	0.478													18	16	---	---	---	---	PASS
LRRC2	79442	broad.mit.edu	37	3	46568960	46568960	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:46568960C>T	uc010hji.2	-	7	1249	c.885G>A	c.(883-885)TTG>TTA	p.L295L	LRRC2_uc003cpu.3_Silent_p.L295L	NM_024512	NP_078788	Q9BYS8	LRRC2_HUMAN	leucine rich repeat containing 2	295	LRR 8.									ovary(1)	1		Ovarian(412;0.0563)		OV - Ovarian serous cystadenocarcinoma(275;6.37e-05)|BRCA - Breast invasive adenocarcinoma(193;0.00133)|KIRC - Kidney renal clear cell carcinoma(197;0.0214)|Kidney(197;0.0254)		GGAGCTCCACCAAATGGTCCC	0.478													19	16	---	---	---	---	PASS
NBEAL2	23218	broad.mit.edu	37	3	47044477	47044477	+	Silent	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:47044477C>A	uc003cqp.2	+	34	5669	c.5490C>A	c.(5488-5490)TCC>TCA	p.S1830S	NBEAL2_uc010hjm.1_Silent_p.S1207S|NBEAL2_uc010hjn.1_Silent_p.S226S|NBEAL2_uc010hjo.1_5'Flank	NM_015175	NP_055990	Q6ZNJ1	NBEL2_HUMAN	neurobeachin-like 2	1830							binding			ovary(1)	1		Acute lymphoblastic leukemia(5;0.0534)		BRCA - Breast invasive adenocarcinoma(193;0.0012)|KIRC - Kidney renal clear cell carcinoma(197;0.00575)|Kidney(197;0.00656)		GGAAACTGTCCAGCGCCGAGA	0.612													7	5	---	---	---	---	PASS
SCAP	22937	broad.mit.edu	37	3	47465450	47465450	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:47465450G>A	uc003crh.1	-	9	1378	c.1123C>T	c.(1123-1125)CTG>TTG	p.L375L	SCAP_uc011baz.1_Silent_p.L120L|SCAP_uc003crg.2_5'UTR	NM_012235	NP_036367	Q12770	SCAP_HUMAN	SREBF chaperone protein	375	SSD.|Cytoplasmic (By similarity).				cholesterol metabolic process|negative regulation of cholesterol biosynthetic process|positive regulation of low-density lipoprotein particle receptor biosynthetic process|positive regulation of transcription via sterol regulatory element binding involved in ER-nuclear sterol response pathway	endoplasmic reticulum membrane|ER to Golgi transport vesicle membrane|Golgi membrane|integral to membrane	unfolded protein binding			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000278)|KIRC - Kidney renal clear cell carcinoma(197;0.00592)|Kidney(197;0.00679)		TTCACCTCCAGGTCTACCGGG	0.567													20	13	---	---	---	---	PASS
CELSR3	1951	broad.mit.edu	37	3	48666117	48666117	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:48666117G>A	uc003cuf.1	-	51	11845	c.11845C>T	c.(11845-11847)CGC>TGC	p.R3949C	SLC26A6_uc003cug.2_Missense_Mutation_p.R523C|SLC26A6_uc003cuh.2_Missense_Mutation_p.R544C|SLC26A6_uc010hke.2_Missense_Mutation_p.R395C|SLC26A6_uc003cuk.2_Missense_Mutation_p.R437C|SLC26A6_uc003cui.2_Missense_Mutation_p.R544C|SLC26A6_uc003cuj.2_Missense_Mutation_p.R544C|SLC26A6_uc011bbp.1_Missense_Mutation_p.R508C	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	Error:Variant_position_missing_in_Q9NYQ7_after_alignment					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)		GCCGAGGAGCGGAAGACCTTC	0.602													18	14	---	---	---	---	PASS
CELSR3	1951	broad.mit.edu	37	3	48692593	48692593	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:48692593C>T	uc003cul.2	-	6	5153	c.4872G>A	c.(4870-4872)AAG>AAA	p.K1624K	CELSR3_uc003cuf.1_Silent_p.K1694K	NM_001407	NP_001398	Q9NYQ7	CELR3_HUMAN	cadherin EGF LAG seven-pass G-type receptor 3	1624	Extracellular (Potential).|Laminin G-like 1.				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)		CCACCTTGTCCTTGGAGGGGC	0.607													9	9	---	---	---	---	PASS
QRICH1	54870	broad.mit.edu	37	3	49095152	49095152	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49095152G>A	uc010hkq.2	-	4	777	c.481C>T	c.(481-483)CCC>TCC	p.P161S	QRICH1_uc003cvu.2_Missense_Mutation_p.P161S|QRICH1_uc003cvv.2_Missense_Mutation_p.P161S	NM_198880	NP_942581	Q2TAL8	QRIC1_HUMAN	glutamine-rich 1	161	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)		AGCTGCGAGGGACTGGGACTC	0.617													40	21	---	---	---	---	PASS
DAG1	1605	broad.mit.edu	37	3	49570418	49570418	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49570418C>T	uc003cxc.3	+	3	2892	c.2474C>T	c.(2473-2475)CCC>CTC	p.P825L		NM_004393	NP_004384	Q14118	DAG1_HUMAN	dystroglycan 1 preproprotein	825	Pro-rich.|Required for interaction with CAV3.|Cytoplasmic (Potential).				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)		GAGAAGGCTCCCCTACCCCCT	0.602													20	12	---	---	---	---	PASS
BSN	8927	broad.mit.edu	37	3	49690811	49690811	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49690811C>T	uc003cxe.3	+	5	3936	c.3822C>T	c.(3820-3822)TCC>TCT	p.S1274S		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	1274					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)		GGCAGGCCTCCTCACGAGACC	0.557													12	13	---	---	---	---	PASS
BSN	8927	broad.mit.edu	37	3	49698116	49698116	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49698116G>A	uc003cxe.3	+	6	8952	c.8838G>A	c.(8836-8838)CGG>CGA	p.R2946R		NM_003458	NP_003449	Q9UPA5	BSN_HUMAN	bassoon protein	2946	Potential.				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)		AGCTGGACCGGGACCTGCGGC	0.642													6	6	---	---	---	---	PASS
RNF123	63891	broad.mit.edu	37	3	49734570	49734570	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49734570C>T	uc003cxh.2	+						RNF123_uc010hky.1_5'Flank|RNF123_uc003cxi.2_5'Flank	NM_022064	NP_071347	Q5XPI4	RN123_HUMAN	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)		CTCTCACTCTCCCCAGGAAAC	0.557													17	5	---	---	---	---	PASS
RNF123	63891	broad.mit.edu	37	3	49753120	49753120	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49753120C>T	uc003cxh.2	+	32	3209	c.3123C>T	c.(3121-3123)TTC>TTT	p.F1041F	RNF123_uc003cxi.2_RNA	NM_022064	NP_071347	Q5XPI4	RN123_HUMAN	ring finger protein 123	1041						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)		ACTGGGCCTTCTCTGAATTCA	0.607													19	14	---	---	---	---	PASS
UBA7	7318	broad.mit.edu	37	3	49848862	49848862	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49848862C>T	uc003cxr.2	-	9	1137	c.966G>A	c.(964-966)CTG>CTA	p.L322L		NM_003335	NP_003326	P41226	UBA7_HUMAN	ubiquitin-like modifier activating enzyme 7	322	2 approximate repeats.				ISG15-protein conjugation|negative regulation of type I interferon production	cytosol	ATP binding|ISG15 activating enzyme activity|ligase activity			ovary(1)|pancreas(1)	2				BRCA - Breast invasive adenocarcinoma(193;3.58e-06)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		GGTCCCGGGCCAGGCCCACCA	0.522													5	1	---	---	---	---	PASS
MST1R	4486	broad.mit.edu	37	3	49936700	49936700	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:49936700G>A	uc003cxy.3	-						MST1R_uc011bdd.1_Intron|MST1R_uc011bde.1_Intron|MST1R_uc011bdf.1_Intron|MST1R_uc011bdg.1_Intron|MST1R_uc011bdc.1_5'Flank	NM_002447	NP_002438	Q04912	RON_HUMAN	macrophage stimulating 1 receptor precursor						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)		GGCCAGGCTGGGAAAGGTCAG	0.617													34	22	---	---	---	---	PASS
RBM5	10181	broad.mit.edu	37	3	50153357	50153357	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:50153357C>T	uc003cyg.2	+	22	2186	c.2038C>T	c.(2038-2040)CGA>TGA	p.R680*	RBM5_uc011bdj.1_Nonsense_Mutation_p.R624*|RBM5_uc011bdk.1_Nonsense_Mutation_p.R508*|RBM5_uc003cyh.2_Nonsense_Mutation_p.R137*	NM_005778	NP_005769	P52756	RBM5_HUMAN	RNA binding motif protein 5	680	Required for interaction with U2AF2.				apoptosis|negative regulation of cell proliferation|positive regulation of apoptosis|regulation of alternative nuclear mRNA splicing, via spliceosome|spliceosome assembly	nucleoplasm|spliceosomal complex	DNA binding|mRNA binding|nucleotide binding|protein binding|zinc ion binding			lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;0.000121)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		GGACATCTATCGACGATCCAG	0.433													24	6	---	---	---	---	PASS
IFRD2	7866	broad.mit.edu	37	3	50329943	50329943	+	5'UTR	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:50329943G>A	uc011bdp.1	-	1					IFRD2_uc003czb.2_Silent_p.A105A	NM_006764	NP_006755	Q12894	IFRD2_HUMAN	interferon-related developmental regulator 2								binding			lung(2)|ovary(1)	3				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		TAATCCCAGAGGCCTGAGCGC	0.667													8	8	---	---	---	---	PASS
TUSC2	11334	broad.mit.edu	37	3	50363626	50363626	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:50363626G>A	uc003czy.1	-						TUSC2_uc003czz.1_Intron	NM_007275	NP_009206	O75896	TUSC2_HUMAN	tumor suppressor candidate 2						cell cycle|cell proliferation|cell-cell signaling		protein binding				0				BRCA - Breast invasive adenocarcinoma(193;0.000272)|KIRC - Kidney renal clear cell carcinoma(197;0.00544)|Kidney(197;0.00607)		CCCTGCCATGGAAACAGAGGC	0.572													4	3	---	---	---	---	PASS
DOCK3	1795	broad.mit.edu	37	3	51196713	51196713	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:51196713C>T	uc011bds.1	+	11	890	c.867C>T	c.(865-867)ATC>ATT	p.I289I		NM_004947	NP_004938	Q8IZD9	DOCK3_HUMAN	dedicator of cytokinesis 3	289						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)		ATTTGTATATCGTTGCCCATG	0.358													30	33	---	---	---	---	PASS
VPRBP	9730	broad.mit.edu	37	3	51467502	51467502	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:51467502G>A	uc003dbe.1	-	10	1618	c.1450C>T	c.(1450-1452)CGT>TGT	p.R484C		NM_014703	NP_055518	Q9Y4B6	VPRBP_HUMAN	HIV-1 Vpr binding protein	484					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)		ACCAGACGACGAAGACCATCA	0.488													6	91	---	---	---	---	PASS
RAD54L2	23132	broad.mit.edu	37	3	51673510	51673510	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:51673510G>A	uc011bdt.1	+	12	2061	c.1936G>A	c.(1936-1938)GAA>AAA	p.E646K	RAD54L2_uc003dbh.2_Missense_Mutation_p.E237K|RAD54L2_uc011bdu.1_Missense_Mutation_p.E340K|RAD54L2_uc003dbj.2_5'UTR	NM_015106	NP_055921	Q9Y4B4	ARIP4_HUMAN	RAD54-like 2	646						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)		CCTAGACGTGGAAGAACTTGG	0.552													23	18	---	---	---	---	PASS
RAD54L2	23132	broad.mit.edu	37	3	51689978	51689978	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:51689978C>T	uc011bdt.1	+						RAD54L2_uc003dbh.2_Intron|RAD54L2_uc011bdu.1_Intron|RAD54L2_uc003dbj.2_Intron	NM_015106	NP_055921	Q9Y4B4	ARIP4_HUMAN	RAD54-like 2							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)		CCTTGTCTTTCTCTTACAGGC	0.507													49	29	---	---	---	---	PASS
ACY1	95	broad.mit.edu	37	3	52021561	52021561	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:52021561C>T	uc003dcp.2	+						ACY1_uc011bea.1_Intron|ACY1_uc011beb.1_Intron|ACY1_uc003dcq.2_Intron	NM_000666	NP_000657	Q03154	ACY1_HUMAN	aminoacylase 1						cellular amino acid metabolic process|proteolysis	cytosol	aminoacylase activity|metal ion binding|metallopeptidase activity			breast(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000534)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	L-Aspartic Acid(DB00128)	AGCTCGTCTCCCTTCTCTTAG	0.577													9	6	---	---	---	---	PASS
DNAH1	25981	broad.mit.edu	37	3	52402765	52402765	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:52402765G>A	uc011bef.1	+	37	6035	c.5774G>A	c.(5773-5775)GGG>GAG	p.G1925E		NM_015512	NP_056327	Q9P2D7	DYH1_HUMAN	dynein, axonemal, heavy chain 1	1925	AAA 2 (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)		AGGACAGACGGGATATTCTCC	0.632													40	39	---	---	---	---	PASS
STAB1	23166	broad.mit.edu	37	3	52548474	52548474	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:52548474C>T	uc003dej.2	+	34	3714	c.3640C>T	c.(3640-3642)CCT>TCT	p.P1214S		NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	1214	FAS1 4.|Extracellular (Potential).				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)		CCTCCTGGGCCCTGCCCACTG	0.647													20	13	---	---	---	---	PASS
STAB1	23166	broad.mit.edu	37	3	52548519	52548519	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:52548519G>A	uc003dej.2	+							NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor						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)		CCAGGTTTGGGGGTCAGGGAG	0.617													16	12	---	---	---	---	PASS
STAB1	23166	broad.mit.edu	37	3	52548520	52548520	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:52548520G>A	uc003dej.2	+							NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor						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)		CAGGTTTGGGGGTCAGGGAGC	0.617													16	12	---	---	---	---	PASS
STAB1	23166	broad.mit.edu	37	3	52551008	52551008	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:52551008C>T	uc003dej.2	+	42	4446	c.4372C>T	c.(4372-4374)CCC>TCC	p.P1458S	STAB1_uc003dek.1_5'Flank	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	1458	Extracellular (Potential).|EGF-like 11.				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)		AGAGGTGGACCCCTGCGCCCA	0.647													23	11	---	---	---	---	PASS
STAB1	23166	broad.mit.edu	37	3	52556435	52556435	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:52556435G>A	uc003dej.2	+	60	6629	c.6555G>A	c.(6553-6555)TTG>TTA	p.L2185L	STAB1_uc003dek.1_Silent_p.L200L|STAB1_uc003del.2_Silent_p.L72L	NM_015136	NP_055951	Q9NY15	STAB1_HUMAN	stabilin 1 precursor	2185	Extracellular (Potential).				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)		ACCGCTGCTTGGGCCAGCCAC	0.622													21	13	---	---	---	---	PASS
NT5DC2	64943	broad.mit.edu	37	3	52563208	52563208	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:52563208C>T	uc003deo.2	-	2	688	c.264G>A	c.(262-264)GAG>GAA	p.E88E	NT5DC2_uc003dem.2_5'Flank|NT5DC2_uc003den.2_Silent_p.E125E|NT5DC2_uc010hmi.2_Silent_p.E125E|NT5DC2_uc010hmj.2_5'UTR	NM_022908	NP_075059	Q9H857	NT5D2_HUMAN	5'-nucleotidase domain containing 2 isoform 2	88							hydrolase activity|metal ion binding				0				BRCA - Breast invasive adenocarcinoma(193;1.7e-05)|Kidney(197;0.00177)|KIRC - Kidney renal clear cell carcinoma(197;0.002)|OV - Ovarian serous cystadenocarcinoma(275;0.0476)		TACTGAAGATCTCGGGGTGCA	0.592													21	21	---	---	---	---	PASS
ITIH1	3697	broad.mit.edu	37	3	52820977	52820977	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:52820977G>A	uc003dfs.2	+	14	1774	c.1750G>A	c.(1750-1752)GAG>AAG	p.E584K	ITIH1_uc010hmn.1_RNA|ITIH1_uc003dft.2_Missense_Mutation_p.E185K|ITIH1_uc010hmo.1_Missense_Mutation_p.E138K|ITIH1_uc003dfu.2_5'Flank	NM_002215	NP_002206	P19827	ITIH1_HUMAN	inter-alpha (globulin) inhibitor H1	584	Hyaluronan-binding.				hyaluronan metabolic process|leukocyte activation	extracellular region	calcium ion binding|serine-type endopeptidase inhibitor activity			ovary(3)	3				BRCA - Breast invasive adenocarcinoma(193;7.04e-05)|Kidney(197;0.000659)|KIRC - Kidney renal clear cell carcinoma(197;0.000795)|OV - Ovarian serous cystadenocarcinoma(275;0.0498)		GGTGGACAGGGAGGAGAGGGC	0.502													17	15	---	---	---	---	PASS
ITIH4	3700	broad.mit.edu	37	3	52852089	52852089	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:52852089G>A	uc003dfz.2	-	20	2311	c.2275C>T	c.(2275-2277)CTG>TTG	p.L759L	ITIH4_uc011bel.1_Silent_p.L473L|ITIH4_uc003dfy.2_Intron|ITIH4_uc011bem.1_Silent_p.L764L|ITIH4_uc011ben.1_Silent_p.L729L	NM_002218	NP_002209	Q14624	ITIH4_HUMAN	inter-alpha (globulin) inhibitor H4	759					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)		TCTGAGAGCAGGTTCACTGGC	0.647													14	12	---	---	---	---	PASS
CACNA1D	776	broad.mit.edu	37	3	53531355	53531355	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:53531355C>A	uc003dgv.3	+	2	407	c.244C>A	c.(244-246)CAA>AAA	p.Q82K	CACNA1D_uc003dgu.3_Missense_Mutation_p.Q82K|CACNA1D_uc003dgy.3_Missense_Mutation_p.Q82K	NM_001128840	NP_001122312	Q01668	CAC1D_HUMAN	calcium channel, voltage-dependent, L type,	82	Cytoplasmic (Potential).				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)	ATCTCTCTCCCAAAGAAAACG	0.522													5	72	---	---	---	---	PASS
CHDH	55349	broad.mit.edu	37	3	53852089	53852089	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:53852089G>A	uc003dgz.2	-	9	1940	c.1500C>T	c.(1498-1500)GCC>GCT	p.A500A		NM_018397	NP_060867	Q8NE62	CHDH_HUMAN	choline dehydrogenase precursor	500					alcohol metabolic process		choline dehydrogenase activity|flavin adenine dinucleotide binding			ovary(1)|central_nervous_system(1)	2		Hepatocellular(537;0.152)		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)	Choline(DB00122)	CCCGCACAAAGGCATCTATCT	0.577													20	20	---	---	---	---	PASS
ACTR8	93973	broad.mit.edu	37	3	53911424	53911424	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:53911424G>A	uc003dhd.2	-						ACTR8_uc003dhb.2_5'Flank|ACTR8_uc003dhc.2_Intron	NM_022899	NP_075050	Q9H981	ARP8_HUMAN	actin-related protein 8						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)		CCTAGAAAAGGAGGAGGGAGA	0.408													14	14	---	---	---	---	PASS
CADPS	8618	broad.mit.edu	37	3	62518605	62518605	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:62518605G>A	uc003dll.2	-	13	2592	c.2232C>T	c.(2230-2232)ATC>ATT	p.I744I	CADPS_uc003dlk.1_Silent_p.I248I|CADPS_uc003dlm.2_Silent_p.I744I|CADPS_uc003dln.2_Silent_p.I727I	NM_003716	NP_003707	Q9ULU8	CAPS1_HUMAN	Ca2+-dependent secretion activator isoform 1	744					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)		GGGTGGGGTCGATCATGGCGC	0.517													36	21	---	---	---	---	PASS
SYNPR	132204	broad.mit.edu	37	3	63594900	63594900	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:63594900G>A	uc003dlq.2	+	4	817	c.448G>A	c.(448-450)GAA>AAA	p.E150K	SYNPR_uc003dlp.2_Missense_Mutation_p.E170K|SYNPR_uc011bfk.1_RNA|SYNPR_uc011bfl.1_RNA|SYNPR_uc010hnt.2_Missense_Mutation_p.E159K|SYNPR_uc011bfm.1_RNA	NM_144642	NP_653243	Q8TBG9	SYNPR_HUMAN	synaptoporin isoform 2	150	MARVEL.|Vesicular (Potential).					cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	transporter activity				0				BRCA - Breast invasive adenocarcinoma(55;0.000918)|KIRC - Kidney renal clear cell carcinoma(15;0.0658)|Kidney(15;0.0904)		GGATCCCAAGGAAGTATTGCT	0.448													16	12	---	---	---	---	PASS
ADAMTS9	56999	broad.mit.edu	37	3	64589744	64589744	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:64589744C>T	uc003dmg.2	-	25	3633	c.3601G>A	c.(3601-3603)GGT>AGT	p.G1201S	ADAMTS9_uc011bfo.1_Missense_Mutation_p.G1173S|ADAMTS9_uc003dmh.1_Missense_Mutation_p.G1030S|ADAMTS9_uc011bfp.1_Missense_Mutation_p.G112S	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1201	TSP type-1 7.				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)		ATCCGGGTACCTTTCCCACAA	0.512													19	14	---	---	---	---	PASS
ADAMTS9	56999	broad.mit.edu	37	3	64599030	64599030	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:64599030G>A	uc003dmg.2	-	22	3377	c.3345C>T	c.(3343-3345)CCC>CCT	p.P1115P	ADAMTS9_uc011bfo.1_Silent_p.P1087P|ADAMTS9_uc003dmh.1_Silent_p.P944P|ADAMTS9_uc011bfp.1_Silent_p.P26P	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1115	TSP type-1 6.				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)		CCTGTCCCCAGGGACCCGCCT	0.463													22	15	---	---	---	---	PASS
ADAMTS9	56999	broad.mit.edu	37	3	64599031	64599031	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:64599031G>A	uc003dmg.2	-	22	3376	c.3344C>T	c.(3343-3345)CCC>CTC	p.P1115L	ADAMTS9_uc011bfo.1_Missense_Mutation_p.P1087L|ADAMTS9_uc003dmh.1_Missense_Mutation_p.P944L|ADAMTS9_uc011bfp.1_Missense_Mutation_p.P26L	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1115	TSP type-1 6.				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)		CTGTCCCCAGGGACCCGCCTG	0.468													23	15	---	---	---	---	PASS
ADAMTS9	56999	broad.mit.edu	37	3	64627562	64627562	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:64627562C>T	uc003dmg.2	-	12	1850	c.1818G>A	c.(1816-1818)GGG>GGA	p.G606G	ADAMTS9_uc011bfo.1_Silent_p.G578G|ADAMTS9_uc003dmh.1_Silent_p.G435G|ADAMTS9_uc003dmk.1_Silent_p.G606G	NM_182920	NP_891550	Q9P2N4	ATS9_HUMAN	ADAM metallopeptidase with thrombospondin type 1	606	TSP type-1 1.				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)		TTTTGATGCCCCCTCCACATG	0.473													30	17	---	---	---	---	PASS
UBA3	9039	broad.mit.edu	37	3	69112186	69112186	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:69112186G>A	uc003dno.2	-	9	660	c.640C>T	c.(640-642)CTG>TTG	p.L214L	UBA3_uc003dnq.2_Silent_p.L200L|UBA3_uc011bfy.1_Silent_p.L37L|UBA3_uc011bfz.1_Silent_p.L37L	NM_003968	NP_003959	Q8TBC4	UBA3_HUMAN	ubiquitin-activating enzyme 3 isoform 1	214	Interaction with UBE2M N-terminus.			L->A: Reduces affinity for UBE2M; when associated with A-217.	protein neddylation|proteolysis	nucleus	acid-amino acid ligase activity|ATP binding|protein heterodimerization activity			ovary(1)	1		Lung NSC(201;0.0193)|Prostate(884;0.174)		BRCA - Breast invasive adenocarcinoma(55;7.98e-05)|Epithelial(33;0.000363)|LUSC - Lung squamous cell carcinoma(21;0.012)|Lung(16;0.0191)|KIRC - Kidney renal clear cell carcinoma(39;0.206)|Kidney(39;0.241)		ATTCCAGGCAGAATCACCCGG	0.423													40	32	---	---	---	---	PASS
GXYLT2	727936	broad.mit.edu	37	3	73016739	73016739	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:73016739G>A	uc003dpg.2	+	6	1018	c.1018G>A	c.(1018-1020)GAT>AAT	p.D340N		NM_001080393	NP_001073862	A0PJZ3	GXLT2_HUMAN	glycosyltransferase 8 domain containing 4	340	Lumenal (Potential).				O-glycan processing	integral to membrane	UDP-xylosyltransferase activity				0						CTACCGTCCCGATCACTGCAT	0.498													22	12	---	---	---	---	PASS
CNTN3	5067	broad.mit.edu	37	3	74349027	74349027	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:74349027T>C	uc003dpm.1	-	16	2238	c.2158A>G	c.(2158-2160)ACC>GCC	p.T720A		NM_020872	NP_065923	Q9P232	CNTN3_HUMAN	contactin 3 precursor	720	Fibronectin type-III 2.				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)		ACATCCCAGGTTATCACAAGT	0.423													21	15	---	---	---	---	PASS
EPHA3	2042	broad.mit.edu	37	3	89391077	89391077	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:89391077C>T	uc003dqy.2	+	5	1368	c.1143C>T	c.(1141-1143)CGC>CGT	p.R381R	EPHA3_uc003dqx.1_Silent_p.R381R|EPHA3_uc010hon.1_RNA	NM_005233	NP_005224	P29320	EPHA3_HUMAN	ephrin receptor EphA3 isoform a precursor	381	Extracellular (Potential).|Fibronectin type-III 1.					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)		CAAATGTCCGCTTCCTCCCTC	0.483										TSP Lung(6;0.00050)			45	31	---	---	---	---	PASS
PROS1	5627	broad.mit.edu	37	3	93615439	93615439	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:93615439G>A	uc003drb.3	-	9	1287	c.946C>T	c.(946-948)CGT>TGT	p.R316C	PROS1_uc010hoo.2_Missense_Mutation_p.R185C|PROS1_uc003dqz.3_Missense_Mutation_p.R185C	NM_000313	NP_000304	P07225	PROS_HUMAN	protein S, alpha preproprotein	316	Laminin G-like 1.				leukocyte migration|peptidyl-glutamic acid carboxylation|platelet activation|platelet degranulation|post-translational protein modification|proteolysis	endoplasmic reticulum membrane|extracellular region|Golgi lumen|Golgi membrane|platelet alpha granule lumen	calcium ion binding|endopeptidase inhibitor activity			large_intestine(1)	1					Antihemophilic Factor(DB00025)|Drotrecogin alfa(DB00055)|Menadione(DB00170)	TCTGGCAAACGAAATTTTAAA	0.408													22	73	---	---	---	---	PASS
GABRR3	200959	broad.mit.edu	37	3	97705818	97705818	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:97705818C>T	uc011bgr.1	-	9	1113	c.1113G>A	c.(1111-1113)AGG>AGA	p.R371R		NM_001105580	NP_001099050	A8MPY1	GBRR3_HUMAN	gamma-aminobutyric acid (GABA) receptor, rho 3	371	Cytoplasmic (Potential).|Interaction with SQSTM1 (By similarity).				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						TATTGTACATCCTAGAAATCT	0.323													21	32	---	---	---	---	PASS
GABRR3	200959	broad.mit.edu	37	3	97711840	97711840	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:97711840G>A	uc011bgr.1	-	8	960	c.960C>T	c.(958-960)TCC>TCT	p.S320S		NM_001105580	NP_001099050	A8MPY1	GBRR3_HUMAN	gamma-aminobutyric acid (GABA) receptor, rho 3	320	Helical; (Potential).				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						CCTGGGGCATGGAGGCGCTCA	0.507													52	64	---	---	---	---	PASS
OR5AC2	81050	broad.mit.edu	37	3	97806407	97806407	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:97806407C>T	uc011bgs.1	+	1	391	c.391C>T	c.(391-393)CCC>TCC	p.P131S		NM_054106	NP_473447	Q9NZP5	O5AC2_HUMAN	olfactory receptor, family 5, subfamily AC,	131	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						CATATGTAATCCCTTGCTTTA	0.428													41	118	---	---	---	---	PASS
OR5H14	403273	broad.mit.edu	37	3	97868733	97868733	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:97868733C>T	uc003dsg.1	+	1	504	c.504C>T	c.(502-504)TTC>TTT	p.F168F		NM_001005514	NP_001005514	A6NHG9	O5H14_HUMAN	olfactory receptor, family 5, subfamily H,	168	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						GACTAACCTTCTGTAACTCCA	0.323													31	71	---	---	---	---	PASS
OR5H15	403274	broad.mit.edu	37	3	97888478	97888478	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:97888478C>T	uc011bgu.1	+	1	935	c.935C>T	c.(934-936)TCA>TTA	p.S312L		NM_001005515	NP_001005515	A6NDH6	O5H15_HUMAN	olfactory receptor, family 5, subfamily H,	312	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						GTTAAGGTTTCATACTAATAT	0.284													16	13	---	---	---	---	PASS
OR5H6	79295	broad.mit.edu	37	3	97983680	97983680	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:97983680C>T	uc003dsi.1	+	1	552	c.552C>T	c.(550-552)TTC>TTT	p.F184F		NM_001005479	NP_001005479	Q8NGV6	OR5H6_HUMAN	olfactory receptor, family 5, subfamily H,	184	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|large_intestine(1)	3						GATTAACCTTCTGTAATTCCA	0.313													23	43	---	---	---	---	PASS
OR5H6	79295	broad.mit.edu	37	3	97984103	97984103	+	Silent	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:97984103T>A	uc003dsi.1	+	1	975	c.975T>A	c.(973-975)GTT>GTA	p.V325V		NM_001005479	NP_001005479	Q8NGV6	OR5H6_HUMAN	olfactory receptor, family 5, subfamily H,	325	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|large_intestine(1)	3						AAAGCAATGTTTAGATCTCAT	0.338													22	48	---	---	---	---	PASS
OR5K1	26339	broad.mit.edu	37	3	98189177	98189177	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:98189177G>A	uc003dsm.2	+	1	757	c.757G>A	c.(757-759)GGA>AGA	p.G253R		NM_001004736	NP_001004736	Q8NHB7	OR5K1_HUMAN	olfactory receptor, family 5, subfamily K,	253	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)	1						ATTATTCTATGGATCTCTTTT	0.338													19	62	---	---	---	---	PASS
GPR15	2838	broad.mit.edu	37	3	98251939	98251939	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:98251939G>A	uc011bgy.1	+	1	1062	c.1062G>A	c.(1060-1062)AGG>AGA	p.R354R		NM_005290	NP_005281	P49685	GPR15_HUMAN	G protein-coupled receptor 15	354	Cytoplasmic (Potential).					integral to plasma membrane	purinergic nucleotide receptor activity, G-protein coupled			ovary(1)	1		Lung NSC(201;7.93e-06)|all_neural(597;0.00172)|Hepatocellular(537;0.00825)|Myeloproliferative disorder(1037;0.0255)		Lung(72;0.246)		CCAGGAGGAGGAAGAGGTCTG	0.428													14	44	---	---	---	---	PASS
FAM55C	91775	broad.mit.edu	37	3	101520114	101520114	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:101520114C>T	uc003dvn.2	+	5	766	c.129C>T	c.(127-129)ATC>ATT	p.I43I	FAM55C_uc010hpn.2_Silent_p.I43I	NM_145037	NP_659474	Q969Y0	FA55C_HUMAN	hypothetical protein LOC91775 precursor	43						extracellular region				ovary(1)|pancreas(1)|skin(1)	3						CCACTTTCATCGACAGCAGTG	0.458													31	73	---	---	---	---	PASS
BBX	56987	broad.mit.edu	37	3	107524288	107524288	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:107524288C>T	uc010hpr.2	+	18	3137	c.2810C>T	c.(2809-2811)TCC>TTC	p.S937F	BBX_uc003dwk.3_Missense_Mutation_p.S907F|BBX_uc003dwl.3_Missense_Mutation_p.P601S|BBX_uc003dwm.3_Missense_Mutation_p.S907F|BBX_uc003dwo.3_Missense_Mutation_p.P254S	NM_001142568	NP_001136040	Q8WY36	BBX_HUMAN	HMG-BOX transcription factor BBX isoform 1	937					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(3)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(3;0.112)			GTACTTATTTCCTGCGCTGAC	0.468													40	92	---	---	---	---	PASS
MYH15	22989	broad.mit.edu	37	3	108147687	108147687	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:108147687C>T	uc003dxa.1	-	28	3471	c.3414G>A	c.(3412-3414)AGG>AGA	p.R1138R		NM_014981	NP_055796	Q9Y2K3	MYH15_HUMAN	myosin, heavy polypeptide 15	1138	Potential.					myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(5)|central_nervous_system(2)	7						CTCGAGTGGTCCTTTCAGCTT	0.383													29	61	---	---	---	---	PASS
MORC1	27136	broad.mit.edu	37	3	108698425	108698425	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:108698425G>A	uc003dxl.2	-	24	2501	c.2414C>T	c.(2413-2415)TCG>TTG	p.S805L	MORC1_uc011bhn.1_Missense_Mutation_p.S784L	NM_014429	NP_055244	Q86VD1	MORC1_HUMAN	MORC family CW-type zinc finger 1	805					cell differentiation|multicellular organismal development|spermatogenesis	nucleus	ATP binding|zinc ion binding			ovary(3)|skin(3)|breast(2)	8						AGACGCTGGCGAAGAAGCAAC	0.418													28	48	---	---	---	---	PASS
MORC1	27136	broad.mit.edu	37	3	108723659	108723659	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:108723659C>T	uc003dxl.2	-						MORC1_uc011bhn.1_Intron	NM_014429	NP_055244	Q86VD1	MORC1_HUMAN	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						AAAGCCTTTTCCCACCTGGGC	0.343													85	150	---	---	---	---	PASS
DPPA2	151871	broad.mit.edu	37	3	109031461	109031461	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:109031461C>T	uc003dxo.2	-	3	359	c.112G>A	c.(112-114)GAA>AAA	p.E38K		NM_138815	NP_620170	Q7Z7J5	DPPA2_HUMAN	developmental pluripotency associated 2	38						nucleus	nucleic acid binding			ovary(2)|upper_aerodigestive_tract(1)	3						TCCATTTGTTCCATATTTGCG	0.418													18	43	---	---	---	---	PASS
DPPA2	151871	broad.mit.edu	37	3	109033353	109033353	+	Intron	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:109033353T>C	uc003dxo.2	-							NM_138815	NP_620170	Q7Z7J5	DPPA2_HUMAN	developmental pluripotency associated 2							nucleus	nucleic acid binding			ovary(2)|upper_aerodigestive_tract(1)	3						AGAATGAAACTTACCTTCTTG	0.388													10	22	---	---	---	---	PASS
SLC9A10	285335	broad.mit.edu	37	3	111918267	111918267	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:111918267C>T	uc003dyu.2	-	20	2646	c.2424G>A	c.(2422-2424)AAG>AAA	p.K808K	SLC9A10_uc011bhu.1_Silent_p.K71K|SLC9A10_uc010hqc.2_Silent_p.K760K	NM_183061	NP_898884	Q4G0N8	S9A10_HUMAN	sperm-specific sodium proton exchanger	808					cell differentiation|multicellular organismal development|sodium ion transport|spermatogenesis	cilium|flagellar membrane|integral to membrane	solute:hydrogen antiporter activity			ovary(3)|breast(2)	5						TAATTTCTTCCTTTGTTTTCA	0.289													13	29	---	---	---	---	PASS
CCDC80	151887	broad.mit.edu	37	3	112324331	112324331	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:112324331C>T	uc003dzf.2	-	8	3004	c.2786G>A	c.(2785-2787)GGA>GAA	p.G929E	CCDC80_uc011bhv.1_Missense_Mutation_p.G902E|CCDC80_uc003dzg.2_Missense_Mutation_p.G929E	NM_199512	NP_955806	Q76M96	CCD80_HUMAN	steroid-sensitive protein 1 precursor	929										ovary(2)	2						ATCCTGGTATCCTTGGTGGTA	0.473													23	42	---	---	---	---	PASS
CD200R1	131450	broad.mit.edu	37	3	112647655	112647655	+	Intron	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:112647655T>A	uc003dzk.1	-						CD200R1_uc003dzj.1_Intron|CD200R1_uc011bhx.1_Intron	NM_170780	NP_740750	Q8TD46	MO2R1_HUMAN	CD200 receptor 1 isoform d						interspecies interaction between organisms|regulation of immune response	extracellular region|integral to membrane|plasma membrane	receptor activity			ovary(2)|pancreas(1)	3						ACTAAAAGAATTACTGACCAG	0.388													11	22	---	---	---	---	PASS
BOC	91653	broad.mit.edu	37	3	112997105	112997105	+	Splice_Site	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:112997105G>T	uc003dzx.2	+	10	2323	c.1702_splice	c.e10+1	p.G568_splice	BOC_uc003dzy.2_Splice_Site_p.G568_splice|BOC_uc003dzz.2_Splice_Site_p.G569_splice|BOC_uc003eab.2_Splice_Site_p.G269_splice|BOC_uc003eac.2_5'Flank	NM_033254	NP_150279	Q9BWV1	BOC_HUMAN	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)			TTCCGAACTGGTGAGAGTCAA	0.562													28	37	---	---	---	---	PASS
DRD3	1814	broad.mit.edu	37	3	113890720	113890720	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:113890720G>A	uc003ebd.2	-	3	543	c.120C>T	c.(118-120)ATC>ATT	p.I40I	DRD3_uc010hqn.1_Silent_p.I40I|DRD3_uc003ebb.1_Silent_p.I40I|DRD3_uc003ebc.1_Silent_p.I40I	NM_000796	NP_000787	P35462	DRD3_HUMAN	dopamine receptor D3 isoform a	40	Helical; Name=1.				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)	CGATGGCCAGGATGAGCGCGC	0.612													10	38	---	---	---	---	PASS
ZNF80	7634	broad.mit.edu	37	3	113955416	113955416	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:113955416G>A	uc010hqo.2	-	1	1010	c.506C>T	c.(505-507)ACC>ATC	p.T169I	ZNF80_uc003ebf.2_RNA	NM_007136	NP_009067	P51504	ZNF80_HUMAN	zinc finger protein 80	169	C2H2-type 5.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Lung NSC(201;0.0233)|all_neural(597;0.0837)				GTAGTAAAAGGTTTTTCCACA	0.488													36	35	---	---	---	---	PASS
TIGIT	201633	broad.mit.edu	37	3	114014420	114014420	+	Silent	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:114014420G>T	uc003ebg.1	+	2	124	c.90G>T	c.(88-90)ACG>ACT	p.T30T		NM_173799	NP_776160	Q495A1	TIGIT_HUMAN	T cell immunoreceptor with Ig and ITIM domains	30	Extracellular (Potential).|Ig-like V-type.				negative regulation of interleukin-12 production|negative regulation of T cell activation|positive regulation of interleukin-10 production	cell surface|integral to membrane|plasma membrane	protein binding			central_nervous_system(1)	1						TAGAAACAACGGGGAACATTT	0.507													6	257	---	---	---	---	PASS
ZBTB20	26137	broad.mit.edu	37	3	114069570	114069570	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:114069570G>A	uc003ebi.2	-	4	1535	c.1355C>T	c.(1354-1356)TCC>TTC	p.S452F	ZBTB20_uc003ebj.2_Missense_Mutation_p.S379F|ZBTB20_uc010hqp.2_Missense_Mutation_p.S379F|ZBTB20_uc003ebk.2_Missense_Mutation_p.S379F|ZBTB20_uc003ebl.2_Missense_Mutation_p.S379F|ZBTB20_uc003ebm.2_Missense_Mutation_p.S379F|ZBTB20_uc003ebn.2_Missense_Mutation_p.S379F|uc003ebo.1_5'Flank	NM_015642	NP_056457	Q9HC78	ZBT20_HUMAN	zinc finger and BTB domain containing 20 isoform	452					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)		GCTCTTGTCGGAGCTGTTGCT	0.547													36	38	---	---	---	---	PASS
LSAMP	4045	broad.mit.edu	37	3	115560810	115560810	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:115560810C>T	uc003ebt.2	-	6	1301	c.801G>A	c.(799-801)AAG>AAA	p.K267K	LSAMP_uc011bis.1_Silent_p.K267K	NM_002338	NP_002329	Q13449	LSAMP_HUMAN	limbic system-associated membrane protein	267	Ig-like C2-type 3.				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)		CCTCCGTGCTCTTAATCTCAA	0.483													36	41	---	---	---	---	PASS
IGSF11	152404	broad.mit.edu	37	3	118621729	118621729	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:118621729T>G	uc003ebw.2	-	7	1181	c.934A>C	c.(934-936)ACC>CCC	p.T312P	IGSF11_uc011biv.1_Missense_Mutation_p.T284P|IGSF11_uc003ebx.2_Missense_Mutation_p.T288P|IGSF11_uc003eby.2_Missense_Mutation_p.T311P|IGSF11_uc003ebz.2_Missense_Mutation_p.T287P|IGSF11_uc010hqs.2_Missense_Mutation_p.T311P	NM_001015887	NP_001015887	Q5DX21	IGS11_HUMAN	immunoglobulin superfamily, member 11 isoform b	312	Cytoplasmic (Potential).				cell adhesion|regulation of growth	integral to membrane|plasma membrane	receptor activity				0						TTGGAAGAGGTTAGTGTGTTG	0.433													46	69	---	---	---	---	PASS
IGSF11	152404	broad.mit.edu	37	3	118648981	118648981	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:118648981G>A	uc003ebw.2	-	2	441	c.194C>T	c.(193-195)TCC>TTC	p.S65F	IGSF11_uc011biv.1_Missense_Mutation_p.S65F|IGSF11_uc003ebx.2_Missense_Mutation_p.S65F|IGSF11_uc003eby.2_Missense_Mutation_p.S64F|IGSF11_uc003ebz.2_Missense_Mutation_p.S64F|IGSF11_uc010hqs.2_Missense_Mutation_p.S64F	NM_001015887	NP_001015887	Q5DX21	IGS11_HUMAN	immunoglobulin superfamily, member 11 isoform b	65	Ig-like V-type.|Extracellular (Potential).				cell adhesion|regulation of growth	integral to membrane|plasma membrane	receptor activity				0						GTTGGCATTGGAGAGAGGAGT	0.507													41	50	---	---	---	---	PASS
C3orf30	152405	broad.mit.edu	37	3	118865034	118865034	+	5'UTR	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:118865034G>A	uc003ecb.1	+	1					IGSF11_uc003eby.2_5'Flank|IGSF11_uc003ebz.2_5'Flank|IGSF11_uc010hqs.2_5'Flank|C3orf30_uc011biw.1_5'UTR	NM_152539	NP_689752	Q96M34	CC030_HUMAN	hypothetical protein LOC152405											ovary(2)	2				GBM - Glioblastoma multiforme(114;0.222)		GACGCGGCAGGAAATGGAAGA	0.617													13	18	---	---	---	---	PASS
B4GALT4	8702	broad.mit.edu	37	3	118943002	118943002	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:118943002G>A	uc003ecg.2	-	5	1218	c.577C>T	c.(577-579)CAC>TAC	p.H193Y	B4GALT4_uc003ece.1_Missense_Mutation_p.H193Y|B4GALT4_uc003ecf.2_RNA|B4GALT4_uc003ech.2_Missense_Mutation_p.H193Y|B4GALT4_uc003eci.2_Missense_Mutation_p.H193Y|B4GALT4_uc011biy.1_RNA	NM_212543	NP_997708	O60513	B4GT4_HUMAN	UDP-Gal:betaGlcNAc beta 1,4-	193	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)	TCCACATCGTGGAATATAAAG	0.453													38	40	---	---	---	---	PASS
PLA1A	51365	broad.mit.edu	37	3	119336889	119336889	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:119336889C>T	uc003ecu.2	+	7	817	c.778C>T	c.(778-780)CAC>TAC	p.H260Y	PLA1A_uc003ecv.2_Missense_Mutation_p.H244Y|PLA1A_uc003ecw.2_RNA|PLA1A_uc011bjc.1_Missense_Mutation_p.H87Y	NM_015900	NP_056984	Q53H76	PLA1A_HUMAN	phospholipase A1 member A precursor	260		Charge relay system (By similarity).			lipid catabolic process|phosphatidylserine metabolic process	extracellular region	phospholipase A1 activity			upper_aerodigestive_tract(1)|ovary(1)|central_nervous_system(1)	3						GATCTGTGATCACATGAGGGC	0.463													63	127	---	---	---	---	PASS
C3orf15	89876	broad.mit.edu	37	3	119458116	119458116	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:119458116G>A	uc003ede.3	+	12	1553	c.1476G>A	c.(1474-1476)ATG>ATA	p.M492I	C3orf15_uc010hqy.1_Missense_Mutation_p.M492I|C3orf15_uc010hqz.2_Missense_Mutation_p.M430I|C3orf15_uc011bjd.1_Missense_Mutation_p.M366I|C3orf15_uc011bje.1_Missense_Mutation_p.M472I|C3orf15_uc010hra.1_Missense_Mutation_p.M253I	NM_033364	NP_203528	Q7Z4T9	AAT1_HUMAN	AAT1-alpha	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment						mitochondrion	protein binding			ovary(2)|pancreas(1)	3				GBM - Glioblastoma multiforme(114;0.186)		AAGAAGAAATGGAAATGGCTG	0.428													59	99	---	---	---	---	PASS
FSTL1	11167	broad.mit.edu	37	3	120134863	120134863	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:120134863C>T	uc003eds.2	-	3	250	c.75G>A	c.(73-75)AGG>AGA	p.R25R	FSTL1_uc011bjh.1_Intron|FSTL1_uc010hrb.2_Silent_p.R25R	NM_007085	NP_009016	Q12841	FSTL1_HUMAN	follistatin-like 1 precursor	25					BMP signaling pathway	extracellular space	calcium ion binding|heparin binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(114;0.189)		TGGATTTGCTCCTTAGCTCTT	0.463													23	58	---	---	---	---	PASS
FSTL1	11167	broad.mit.edu	37	3	120134864	120134864	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:120134864C>T	uc003eds.2	-	3	249	c.74G>A	c.(73-75)AGG>AAG	p.R25K	FSTL1_uc011bjh.1_Intron|FSTL1_uc010hrb.2_Missense_Mutation_p.R25K	NM_007085	NP_009016	Q12841	FSTL1_HUMAN	follistatin-like 1 precursor	25					BMP signaling pathway	extracellular space	calcium ion binding|heparin binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(114;0.189)		GGATTTGCTCCTTAGCTCTTC	0.463													23	60	---	---	---	---	PASS
GTF2E1	2960	broad.mit.edu	37	3	120500324	120500324	+	3'UTR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:120500324C>T	uc003edz.3	+	5						NM_005513	NP_005504	P29083	T2EA_HUMAN	general transcription factor IIE, polypeptide 1,						interspecies interaction between organisms|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	nucleoplasm	protein binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.159)		GTGAGCTTTCCCTAATTCTTT	0.428													25	58	---	---	---	---	PASS
GOLGB1	2804	broad.mit.edu	37	3	121396221	121396221	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:121396221G>A	uc003eei.3	-	16	9061	c.8935C>T	c.(8935-8937)CAG>TAG	p.Q2979*	GOLGB1_uc010hrc.2_Nonsense_Mutation_p.Q2984*|GOLGB1_uc003eej.3_Nonsense_Mutation_p.Q2945*	NM_004487	NP_004478	Q14789	GOGB1_HUMAN	golgi autoantigen, golgin subfamily b,	2979	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)		CTGAGCTGCTGATCTTTATCT	0.418													20	47	---	---	---	---	PASS
ILDR1	286676	broad.mit.edu	37	3	121724179	121724179	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:121724179C>T	uc003ees.2	-	3	397	c.291G>A	c.(289-291)CGG>CGA	p.R97R	ILDR1_uc003eeq.2_Silent_p.R109R|ILDR1_uc003eer.2_Silent_p.R97R|ILDR1_uc010hrg.2_Silent_p.R97R	NM_175924	NP_787120	Q86SU0	ILDR1_HUMAN	immunoglobulin-like domain containing receptor	97	Extracellular (Potential).|Ig-like V-type.		R -> Q (in DFNB42).			cytosol|integral to membrane|plasma membrane	receptor activity			skin(1)	1				GBM - Glioblastoma multiforme(114;0.156)		TGCGAACTTCCCGCTGGTTGT	0.602													12	19	---	---	---	---	PASS
CASR	846	broad.mit.edu	37	3	121980931	121980931	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:121980931A>T	uc003eev.3	+	4	1421	c.1049A>T	c.(1048-1050)GAG>GTG	p.E350V	CASR_uc003eew.3_Missense_Mutation_p.E350V	NM_000388	NP_000379	P41180	CASR_HUMAN	calcium-sensing receptor precursor	350	Extracellular (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)	TTTGCCAAGGAGTTTTGGGAA	0.507													29	35	---	---	---	---	PASS
MUC13	56667	broad.mit.edu	37	3	124632524	124632524	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:124632524G>A	uc003ehq.1	-	7	990	c.966C>T	c.(964-966)ACC>ACT	p.T322T		NM_033049	NP_149038	Q9H3R2	MUC13_HUMAN	mucin 13, epithelial transmembrane	322	EGF-like 2.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane					0						CACACCGAAGGGTCACTGAGA	0.413													22	36	---	---	---	---	PASS
ALDH1L1	10840	broad.mit.edu	37	3	125828880	125828880	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:125828880G>A	uc003eim.1	-	20	2444	c.2254C>T	c.(2254-2256)CAT>TAT	p.H752Y	ALDH1L1_uc010hse.1_RNA|ALDH1L1_uc011bki.1_Missense_Mutation_p.H651Y|ALDH1L1_uc003ein.1_Missense_Mutation_p.H287Y	NM_012190	NP_036322	O75891	AL1L1_HUMAN	aldehyde dehydrogenase 1 family, member L1	752	Aldehyde dehydrogenase.				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)	AGGTGGGCATGGTGATTCTGC	0.612													14	28	---	---	---	---	PASS
ALDH1L1	10840	broad.mit.edu	37	3	125877439	125877439	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:125877439G>A	uc003eim.1	-	3	361	c.171C>T	c.(169-171)TCC>TCT	p.S57S	ALDH1L1_uc010hse.1_RNA|ALDH1L1_uc011bki.1_Silent_p.S57S|ALDH1L1_uc003eio.2_5'Flank|ALDH1L1_uc010hsf.1_Silent_p.S83S|ALDH1L1_uc003eip.1_5'UTR|ALDH1L1_uc011bkj.1_Intron	NM_012190	NP_036322	O75891	AL1L1_HUMAN	aldehyde dehydrogenase 1 family, member L1	57	GART.				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)	CACGCCACCGGGAGTACTTGA	0.572													25	35	---	---	---	---	PASS
KLF15	28999	broad.mit.edu	37	3	126071359	126071359	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:126071359G>A	uc011bkk.1	-	2	589	c.407C>T	c.(406-408)CCC>CTC	p.P136L		NM_014079	NP_054798	Q9UIH9	KLF15_HUMAN	Kruppel-like factor 15	136						nucleus	DNA binding|zinc ion binding			lung(1)	1				GBM - Glioblastoma multiforme(114;0.147)		AGGCTGGAAGGGCCGTGGGAC	0.612													14	36	---	---	---	---	PASS
UROC1	131669	broad.mit.edu	37	3	126202227	126202227	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:126202227C>T	uc003eiz.1	-	19	1907	c.1875G>A	c.(1873-1875)TGG>TGA	p.W625*	UROC1_uc010hsi.1_Nonsense_Mutation_p.W685*	NM_144639	NP_653240	Q96N76	HUTU_HUMAN	urocanase domain containing 1 isoform 1	625					histidine catabolic process	cytosol	urocanate hydratase activity			ovary(1)	1				GBM - Glioblastoma multiforme(114;0.17)		TGGAGACATCCCAGCTGAGCA	0.622													10	15	---	---	---	---	PASS
PLXNA1	5361	broad.mit.edu	37	3	126710216	126710216	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:126710216C>T	uc003ejg.2	+							NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1						axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		TCACCCTGCCCCTTCCCACAG	0.652													8	15	---	---	---	---	PASS
PLXNA1	5361	broad.mit.edu	37	3	126736309	126736309	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:126736309C>T	uc003ejg.2	+	17	3253	c.3249C>T	c.(3247-3249)GCC>GCT	p.A1083A		NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	1106	Extracellular (Potential).|IPT/TIG 3.				axon guidance	integral to membrane|intracellular|plasma membrane	semaphorin receptor activity			ovary(1)|pancreas(1)|skin(1)	3				GBM - Glioblastoma multiforme(114;0.155)		TATGCCGCGCCCCGTCTGTGG	0.677													22	25	---	---	---	---	PASS
PLXNA1	5361	broad.mit.edu	37	3	126746880	126746880	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:126746880C>T	uc003ejg.2	+	23	4395	c.4391C>T	c.(4390-4392)TCC>TTC	p.S1464F	PLXNA1_uc003ejh.2_Missense_Mutation_p.S132F	NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	1487	Cytoplasmic (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)		GCACGCTACTCCCTGAGTGAG	0.632													27	44	---	---	---	---	PASS
PLXNA1	5361	broad.mit.edu	37	3	126751655	126751655	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:126751655C>T	uc003ejg.2	+	30	5506	c.5502C>T	c.(5500-5502)TCC>TCT	p.S1834S	PLXNA1_uc003ejh.2_Silent_p.S502S	NM_032242	NP_115618	Q9UIW2	PLXA1_HUMAN	plexin A1	1857	Cytoplasmic (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)		AGATCTACTCCTACATCACCA	0.617													27	61	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	3	126916034	126916034	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:126916034C>T	uc003eji.1	+	2	746	c.506C>T	c.(505-507)GCC>GTC	p.A169V						RecName: Full=Putative uncharacterized protein C3orf56;																		CCCAGGGCTGCCGTAGAGGGG	0.642													13	26	---	---	---	---	PASS
PODXL2	50512	broad.mit.edu	37	3	127379844	127379844	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:127379844C>T	uc003ejq.2	+	3	997	c.973C>T	c.(973-975)CCC>TCC	p.P325S		NM_015720	NP_056535	Q9NZ53	PDXL2_HUMAN	podocalyxin-like 2 precursor	325	Extracellular (Potential).				leukocyte tethering or rolling	integral to plasma membrane	glycosaminoglycan binding|protein binding			ovary(1)|central_nervous_system(1)	2						AGATGAAGATCCCCTTGGCTC	0.587													20	46	---	---	---	---	PASS
PODXL2	50512	broad.mit.edu	37	3	127387383	127387383	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:127387383C>T	uc003ejq.2	+	5	1330	c.1306C>T	c.(1306-1308)CTG>TTG	p.L436L		NM_015720	NP_056535	Q9NZ53	PDXL2_HUMAN	podocalyxin-like 2 precursor	436	Extracellular (Potential).				leukocyte tethering or rolling	integral to plasma membrane	glycosaminoglycan binding|protein binding			ovary(1)|central_nervous_system(1)	2						GCACATCTCTCTGAGCAAGCC	0.682													3	7	---	---	---	---	PASS
KBTBD12	166348	broad.mit.edu	37	3	127642514	127642514	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:127642514C>T	uc010hsr.2	+	1	613	c.610C>T	c.(610-612)CAT>TAT	p.H204Y	KBTBD12_uc003ejy.3_Intron|KBTBD12_uc010hsq.2_Intron|KBTBD12_uc003eka.3_Intron|KBTBD12_uc003ejz.2_Missense_Mutation_p.H204Y	NM_207335	NP_997218	Q3ZCT8	KBTBC_HUMAN	kelch domain containing 6	204	BACK.									ovary(1)	1						ATGGGTAAATCATAACAAAGA	0.358													18	32	---	---	---	---	PASS
SEC61A1	29927	broad.mit.edu	37	3	127783795	127783795	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:127783795G>T	uc003ekb.2	+	8	876	c.692G>T	c.(691-693)CGG>CTG	p.R231L	RUVBL1_uc003eke.2_3'UTR|RUVBL1_uc003ekf.2_3'UTR|SEC61A1_uc003ekc.2_Missense_Mutation_p.R178L|SEC61A1_uc003ekd.2_Missense_Mutation_p.R111L|SEC61A1_uc003ekg.2_Intron	NM_013336	NP_037468	P61619	S61A1_HUMAN	Sec61 alpha 1 subunit	231	Lumenal (Potential).				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						CGAGCCCTTCGGGAGGCGTTC	0.507													4	79	---	---	---	---	PASS
C3orf37	56941	broad.mit.edu	37	3	129007816	129007816	+	Silent	SNP	C	A	A	rs139766481		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:129007816C>A	uc003elt.2	+	3	391	c.303C>A	c.(301-303)ACC>ACA	p.T101T	C3orf37_uc003elu.2_Silent_p.T101T|C3orf37_uc003elv.2_Silent_p.T101T|C3orf37_uc003elw.2_Silent_p.T101T	NM_020187	NP_064572	Q96FZ2	CC037_HUMAN	hypothetical protein LOC56941	101										ovary(1)	1						GTAGTGATACCGTAATGGAGA	0.473													4	66	---	---	---	---	PASS
PLXND1	23129	broad.mit.edu	37	3	129278576	129278576	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:129278576G>A	uc003emx.2	-	32	5284	c.5184C>T	c.(5182-5184)ATC>ATT	p.I1728I	PLXND1_uc003emw.2_5'Flank|PLXND1_uc011blb.1_Silent_p.I396I	NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor	1728	Cytoplasmic (Potential).				axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						TGTCTTCACGGATACTCAGAA	0.602													26	95	---	---	---	---	PASS
PLXND1	23129	broad.mit.edu	37	3	129291597	129291597	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:129291597G>A	uc003emx.2	-							NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor						axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						GGCAGCTGTGGGAGGAAGGCA	0.687													3	11	---	---	---	---	PASS
PLXND1	23129	broad.mit.edu	37	3	129291598	129291598	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:129291598G>A	uc003emx.2	-							NM_015103	NP_055918	Q9Y4D7	PLXD1_HUMAN	plexin D1 precursor						axon guidance	integral to membrane|intracellular|plasma membrane				large_intestine(1)	1						GCAGCTGTGGGAGGAAGGCAG	0.692													3	11	---	---	---	---	PASS
TRH	7200	broad.mit.edu	37	3	129695765	129695765	+	Silent	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:129695765A>G	uc003enc.2	+	3	996	c.435A>G	c.(433-435)GCA>GCG	p.A145A		NM_007117	NP_009048	P20396	TRH_HUMAN	thyrotropin-releasing hormone	145					cell-cell signaling|hormone-mediated signaling pathway	extracellular region|soluble fraction	neuropeptide hormone activity|thyrotropin-releasing hormone activity			ovary(1)	1						CCTGGCTTGCATATGCTGTCC	0.517													7	27	---	---	---	---	PASS
COL6A6	131873	broad.mit.edu	37	3	130380524	130380524	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:130380524C>T	uc010htl.2	+	34	5905	c.5874C>T	c.(5872-5874)CCC>CCT	p.P1958P	COL6A6_uc003eni.3_Silent_p.P57P	NM_001102608	NP_001096078	A6NMZ7	CO6A6_HUMAN	collagen type VI alpha 6 precursor	1958	Nonhelical region.				axon guidance|cell adhesion	collagen				ovary(6)|central_nervous_system(1)|pancreas(1)	8						CCAGACCACCCCCTGTGCAGT	0.468													20	36	---	---	---	---	PASS
ATP2C1	27032	broad.mit.edu	37	3	130674959	130674959	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:130674959C>T	uc003enl.2	+	11	990	c.768C>T	c.(766-768)ACC>ACT	p.T256T	ATP2C1_uc011blg.1_Silent_p.T290T|ATP2C1_uc011blh.1_Silent_p.T251T|ATP2C1_uc011bli.1_Silent_p.T290T|ATP2C1_uc003enk.2_Silent_p.T240T|ATP2C1_uc003enm.2_Silent_p.T256T|ATP2C1_uc003enn.2_Silent_p.T240T|ATP2C1_uc003eno.2_Silent_p.T256T|ATP2C1_uc003enp.2_Silent_p.T256T|ATP2C1_uc003enq.2_Silent_p.T256T|ATP2C1_uc003enr.2_Silent_p.T256T|ATP2C1_uc003ens.2_Silent_p.T256T|ATP2C1_uc003ent.2_Silent_p.T256T	NM_014382	NP_055197	P98194	AT2C1_HUMAN	calcium-transporting ATPase 2C1 isoform 1a	256	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)	CACCAAAAACCCCTCTGCAGA	0.259									Hailey-Hailey_disease				16	58	---	---	---	---	PASS
TMEM108	66000	broad.mit.edu	37	3	133098693	133098693	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:133098693C>T	uc003eph.2	+	4	412	c.138C>T	c.(136-138)CCC>CCT	p.P46P	TMEM108_uc003epi.2_Silent_p.P46P|TMEM108_uc003epj.1_Silent_p.P46P|TMEM108_uc003epk.2_Intron|TMEM108_uc003epm.2_5'UTR	NM_023943	NP_076432	Q6UXF1	TM108_HUMAN	transmembrane protein 108 precursor	46	Extracellular (Potential).					integral to membrane				ovary(2)|skin(2)	4						CAGGCACTCCCCCGGGAACCA	0.587													84	153	---	---	---	---	PASS
TF	7018	broad.mit.edu	37	3	133496008	133496008	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:133496008G>A	uc003epu.1	+	21	3716	c.1988G>A	c.(1987-1989)AGA>AAA	p.R663K	TF_uc011blt.1_Missense_Mutation_p.R536K|TF_uc003epw.1_Missense_Mutation_p.R102K|TF_uc003epv.1_Missense_Mutation_p.R663K	NM_001063	NP_001054	P02787	TRFE_HUMAN	transferrin precursor	663	Transferrin-like 2.				cellular iron ion homeostasis|platelet activation|platelet degranulation|transferrin transport|transmembrane transport	apical plasma membrane|basal plasma membrane|coated pit|early endosome|endocytic vesicle|endosome membrane|extracellular region|late endosome|perinuclear region of cytoplasm|recycling endosome|stored secretory granule	ferric iron binding			ovary(1)|skin(1)	2					Aluminium(DB01370)|Bismuth(DB01402)|Iron Dextran(DB00893)	CTTCATGACAGAAACACATAT	0.438													15	30	---	---	---	---	PASS
C3orf36	80111	broad.mit.edu	37	3	133647202	133647202	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:133647202T>G	uc003epz.1	-	1	1455	c.446A>C	c.(445-447)AAA>ACA	p.K149T		NM_025041	NP_079317	Q3SXR2	CC036_HUMAN	hypothetical protein LOC80111	149										ovary(1)	1						GACTCTCAGTTTCACCCTTGG	0.552													19	48	---	---	---	---	PASS
SOX14	8403	broad.mit.edu	37	3	137484073	137484073	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:137484073C>T	uc003erm.1	+	1	495	c.447C>T	c.(445-447)ATC>ATT	p.I149I		NM_004189	NP_004180	O95416	SOX14_HUMAN	SRY-box 14	149					negative regulation of transcription from RNA polymerase II promoter|nervous system development|transcription, DNA-dependent	nucleus	sequence-specific DNA binding				0						CGAGCGCCATCCAGAAGATGG	0.701													5	6	---	---	---	---	PASS
ESYT3	83850	broad.mit.edu	37	3	138178092	138178092	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:138178092C>T	uc003esk.2	+	5	871	c.645C>T	c.(643-645)ATC>ATT	p.I215I	ESYT3_uc010hug.2_RNA	NM_031913	NP_114119	A0FGR9	ESYT3_HUMAN	family with sequence similarity 62 (C2 domain	215						integral to membrane|plasma membrane					0						TGAACGGGATCCAGGTGGGTG	0.622													32	58	---	---	---	---	PASS
C3orf72	401089	broad.mit.edu	37	3	138669273	138669273	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:138669273C>T	uc003esx.1	+	3	518	c.387C>T	c.(385-387)TCC>TCT	p.S129S	C3orf72_uc011bmr.1_3'UTR	NM_001040061	NP_001035150	Q6ZUU3	CC072_HUMAN	chromosome 3 open reading frame 72	129											0						TTCCGCTGTCCCCTTTCCTAG	0.667													14	16	---	---	---	---	PASS
PRR23B	389151	broad.mit.edu	37	3	138739123	138739123	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:138739123G>A	uc003esy.1	-	1	646	c.381C>T	c.(379-381)TTC>TTT	p.F127F		NM_001013650	NP_001013672	Q6ZRT6	PR23B_HUMAN	proline rich 23B	127										breast(1)	1						CAGCGCCCAGGAAAACGTCCA	0.642													23	33	---	---	---	---	PASS
RASA2	5922	broad.mit.edu	37	3	141331133	141331133	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:141331133C>T	uc003etz.1	+	24	2528	c.2528C>T	c.(2527-2529)CCA>CTA	p.P843L	RASA2_uc010huq.1_Missense_Mutation_p.P847L|RASA2_uc003eua.1_Missense_Mutation_p.P844L|uc003eub.2_5'Flank	NM_006506	NP_006497	Q15283	RASA2_HUMAN	RAS p21 protein activator 2	843					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						AGGGAAAATCCAATTGTTGGG	0.259													6	20	---	---	---	---	PASS
ATR	545	broad.mit.edu	37	3	142272709	142272709	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:142272709G>A	uc003eux.3	-	11	2612	c.2490C>T	c.(2488-2490)CAC>CAT	p.H830H		NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	830	HEAT 1.				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						ATTCCAATATGTGCTTGATAT	0.313								Other_conserved_DNA_damage_response_genes					18	29	---	---	---	---	PASS
ATR	545	broad.mit.edu	37	3	142272711	142272711	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:142272711G>T	uc003eux.3	-	11	2610	c.2488C>A	c.(2488-2490)CAC>AAC	p.H830N		NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	830	HEAT 1.				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						TCCAATATGTGCTTGATATTT	0.313								Other_conserved_DNA_damage_response_genes					17	29	---	---	---	---	PASS
ATR	545	broad.mit.edu	37	3	142281929	142281929	+	Silent	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:142281929C>A	uc003eux.3	-	4	437	c.315G>T	c.(313-315)ACG>ACT	p.T105T		NM_001184	NP_001175	Q13535	ATR_HUMAN	ataxia telangiectasia and Rad3 related protein	105					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						GCAGAAGTCTCGTTATGATCC	0.318								Other_conserved_DNA_damage_response_genes					4	139	---	---	---	---	PASS
PLSCR1	5359	broad.mit.edu	37	3	146246546	146246546	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:146246546G>A	uc003evx.3	-	4	555	c.167C>T	c.(166-168)CCT>CTT	p.P56L	PLSCR1_uc003evy.3_Missense_Mutation_p.P49L|PLSCR1_uc011bnn.1_Intron|PLSCR1_uc003evz.3_Intron|PLSCR1_uc003ewa.2_Missense_Mutation_p.P56L	NM_021105	NP_066928	O15162	PLS1_HUMAN	phospholipid scramblase 1	56	Cytoplasmic.				phospholipid scrambling|platelet activation|response to virus	integral to membrane|plasma membrane	calcium ion binding|phospholipid scramblase activity|SH3 domain binding			ovary(2)	2						AGCTGGGCCAGGACCTGAATG	0.547													23	24	---	---	---	---	PASS
TM4SF4	7104	broad.mit.edu	37	3	149192700	149192700	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:149192700G>A	uc003exd.1	+	1	267	c.36G>A	c.(34-36)GGG>GGA	p.G12G		NM_004617	NP_004608	P48230	T4S4_HUMAN	transmembrane 4 superfamily member 4	12	Helical; (Potential).					integral to membrane					0			LUSC - Lung squamous cell carcinoma(72;0.0378)|Lung(72;0.048)			GCCTGGGGGGGACCCTCATTC	0.527													13	33	---	---	---	---	PASS
TM4SF4	7104	broad.mit.edu	37	3	149216509	149216509	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:149216509G>A	uc003exd.1	+	4	633	c.402G>A	c.(400-402)GGG>GGA	p.G134G		NM_004617	NP_004608	P48230	T4S4_HUMAN	transmembrane 4 superfamily member 4	134	Extracellular (Potential).					integral to membrane					0			LUSC - Lung squamous cell carcinoma(72;0.0378)|Lung(72;0.048)			TCACCAACAGGGATTATCTCA	0.448													10	37	---	---	---	---	PASS
FAM194A	131831	broad.mit.edu	37	3	150421547	150421547	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:150421547C>T	uc003eyg.2	-	1	196	c.139G>A	c.(139-141)GAG>AAG	p.E47K	FAM194A_uc003eyh.2_Intron	NM_152394	NP_689607	Q7L0X2	F194A_HUMAN	hypothetical protein LOC131831	47	Glu-rich.									skin(2)|ovary(1)	3						tcctccacctcttcctcctcc	0.184													3	13	---	---	---	---	PASS
CLRN1	7401	broad.mit.edu	37	3	150645901	150645901	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:150645901C>T	uc003eyk.1	-	3	812	c.521G>A	c.(520-522)GGG>GAG	p.G174E	CLRN1OS_uc011bny.1_Intron|CLRN1_uc003eyj.2_Missense_Mutation_p.G98E|CLRN1_uc010hvj.1_RNA	NM_174878	NP_777367	P58418	CLRN1_HUMAN	clarin 1 isoform a	174					equilibrioception|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	integral to membrane					0			LUSC - Lung squamous cell carcinoma(72;0.0538)|Lung(72;0.066)			GACATAAGTCCCTTCTTTATA	0.373													13	45	---	---	---	---	PASS
MED12L	116931	broad.mit.edu	37	3	151086016	151086016	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:151086016C>T	uc003eyp.2	+	23	3460	c.3422C>T	c.(3421-3423)GCC>GTC	p.A1141V	MED12L_uc011bnz.1_Missense_Mutation_p.A1001V|P2RY12_uc011boa.1_Intron|P2RY12_uc003eyx.1_Intron|MED12L_uc003eyy.1_Missense_Mutation_p.A304V	NM_053002	NP_443728	Q86YW9	MD12L_HUMAN	mediator of RNA polymerase II transcription,	1141					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)			GCTCCCCAGGCCTGCTTCTTA	0.507													4	27	---	---	---	---	PASS
MME	4311	broad.mit.edu	37	3	154878200	154878200	+	Silent	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:154878200A>G	uc010hvr.1	+	17	1834	c.1623A>G	c.(1621-1623)GTA>GTG	p.V541V	MME_uc003fab.1_Silent_p.V541V|MME_uc003fac.1_Silent_p.V541V|MME_uc003fad.1_Silent_p.V541V|MME_uc003fae.1_Silent_p.V541V	NM_007289	NP_009220	P08473	NEP_HUMAN	membrane metallo-endopeptidase	541	Extracellular (Potential).				cell-cell signaling|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3		all_neural(597;0.00391)|Myeloproliferative disorder(1037;0.0122)	LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.135)		Candoxatril(DB00616)	GAGCAGCTGTAGTCAATGCAT	0.333													75	78	---	---	---	---	PASS
MME	4311	broad.mit.edu	37	3	154886515	154886515	+	Intron	SNP	T	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:154886515T>G	uc010hvr.1	+						MME_uc003fab.1_Intron|MME_uc003fac.1_Intron|MME_uc003fad.1_Intron|MME_uc003fae.1_Intron	NM_007289	NP_009220	P08473	NEP_HUMAN	membrane metallo-endopeptidase						cell-cell signaling|proteolysis	integral to plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3		all_neural(597;0.00391)|Myeloproliferative disorder(1037;0.0122)	LUSC - Lung squamous cell carcinoma(72;0.114)|Lung(72;0.135)		Candoxatril(DB00616)	GTGTCTTTTTTAACAGCTTAA	0.299													20	41	---	---	---	---	PASS
PLCH1	23007	broad.mit.edu	37	3	155199797	155199797	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:155199797G>A	uc011bok.1	-	23	4319	c.4042C>T	c.(4042-4044)CCC>TCC	p.P1348S	PLCH1_uc011boj.1_3'UTR|PLCH1_uc011bol.1_Missense_Mutation_p.P1310S	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	1348					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)			CAGAGAGTGGGATCAGCTATT	0.473													9	21	---	---	---	---	PASS
PLCH1	23007	broad.mit.edu	37	3	155200114	155200114	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:155200114A>T	uc011bok.1	-	23	4002	c.3725T>A	c.(3724-3726)TTT>TAT	p.F1242Y	PLCH1_uc011boj.1_3'UTR|PLCH1_uc011bol.1_Missense_Mutation_p.F1204Y	NM_001130960	NP_001124432	Q4KWH8	PLCH1_HUMAN	phospholipase C eta 1 isoform a	1242					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)			TCCCTTGCAAAAACCATGCTT	0.473													26	34	---	---	---	---	PASS
B3GALNT1	8706	broad.mit.edu	37	3	160804255	160804255	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:160804255G>A	uc003fdv.2	-	5	707	c.288C>T	c.(286-288)GCC>GCT	p.A96A	B3GALNT1_uc003fdw.2_Silent_p.A96A|B3GALNT1_uc003fdx.2_Silent_p.A96A|B3GALNT1_uc003fdy.2_Silent_p.A96A|B3GALNT1_uc003fdz.2_Silent_p.A96A|B3GALNT1_uc003fea.2_Silent_p.A96A|B3GALNT1_uc011bpa.1_Intron	NM_033169	NP_149359	O75752	B3GL1_HUMAN	UDP-Gal:betaGlcNAc beta	96	Lumenal (Potential).				protein glycosylation	Golgi membrane|integral to membrane	galactosylgalactosylglucosylceramide beta-D-acetylgalactosaminyltransferase activity|UDP-galactose:beta-N-acetylglucosamine beta-1,3-galactosyltransferase activity			skin(1)	1			LUSC - Lung squamous cell carcinoma(72;4.41e-05)|Lung(72;4.61e-05)			TAACTCTAATGGCCTGCCTGG	0.433													38	47	---	---	---	---	PASS
NMD3	51068	broad.mit.edu	37	3	160942831	160942831	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:160942831C>T	uc003feb.1	+	3	277	c.158C>T	c.(157-159)TCG>TTG	p.S53L	NMD3_uc003fec.2_Missense_Mutation_p.S53L|NMD3_uc003fed.1_Missense_Mutation_p.S53L	NM_015938	NP_057022	Q96D46	NMD3_HUMAN	NMD3 homolog	53					protein transport	cytoplasm|nucleolus|nucleoplasm				ovary(1)	1			Lung(72;0.00111)|LUSC - Lung squamous cell carcinoma(72;0.00156)			GTCTCGATTTCGTTCTGCAAA	0.408													36	57	---	---	---	---	PASS
OTOL1	131149	broad.mit.edu	37	3	161214691	161214691	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:161214691G>A	uc011bpb.1	+	1	96	c.96G>A	c.(94-96)ACG>ACA	p.T32T		NM_001080440	NP_001073909	A6NHN0	OTOL1_HUMAN	otolin-1 precursor	32						collagen					0						CCAAATTTACGAAGAAATCTG	0.408													23	40	---	---	---	---	PASS
OTOL1	131149	broad.mit.edu	37	3	161216955	161216955	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:161216955C>T	uc011bpb.1	+							NM_001080440	NP_001073909	A6NHN0	OTOL1_HUMAN	otolin-1 precursor							collagen					0						AATCCCATTTCTAGGTCCTAA	0.393													6	13	---	---	---	---	PASS
OTOL1	131149	broad.mit.edu	37	3	161220930	161220930	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:161220930G>A	uc011bpb.1	+	4	634	c.634G>A	c.(634-636)GGG>AGG	p.G212R		NM_001080440	NP_001073909	A6NHN0	OTOL1_HUMAN	otolin-1 precursor	212	Collagen-like 2.					collagen					0						AGGAGACCAAGGGGCTATGGG	0.413													7	7	---	---	---	---	PASS
SI	6476	broad.mit.edu	37	3	164716433	164716433	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:164716433C>T	uc003fei.2	-	38	4497	c.4435G>A	c.(4435-4437)GGG>AGG	p.G1479R		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	1479	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)	ATTACAATCCCTCTTTTTCCA	0.388										HNSCC(35;0.089)			21	45	---	---	---	---	PASS
SI	6476	broad.mit.edu	37	3	164764709	164764709	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:164764709C>T	uc003fei.2	-	16	1869	c.1807G>A	c.(1807-1809)GGA>AGA	p.G603R		NM_001041	NP_001032	P14410	SUIS_HUMAN	sucrase-isomaltase	603	Lumenal.|Isomaltase.				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)	GTATTGTCTCCTAACCAATGC	0.388										HNSCC(35;0.089)			24	46	---	---	---	---	PASS
SLITRK3	22865	broad.mit.edu	37	3	164906911	164906911	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:164906911G>A	uc003fej.3	-	2	2152	c.1708C>T	c.(1708-1710)CTG>TTG	p.L570L	SLITRK3_uc003fek.2_Silent_p.L570L	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	570	LRRCT 2.|Extracellular (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						AAGGGGACCAGGTCACAGGTG	0.522										HNSCC(40;0.11)			15	37	---	---	---	---	PASS
SLITRK3	22865	broad.mit.edu	37	3	164908399	164908399	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:164908399C>T	uc003fej.3	-	2	664	c.220G>A	c.(220-222)GAG>AAG	p.E74K	SLITRK3_uc003fek.2_Missense_Mutation_p.E74K	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor	74	Extracellular (Potential).					integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						GACCAGAACTCGGTAATCTGA	0.338										HNSCC(40;0.11)			26	42	---	---	---	---	PASS
SLITRK3	22865	broad.mit.edu	37	3	164908619	164908619	+	5'UTR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:164908619C>T	uc003fej.3	-	2					SLITRK3_uc003fek.2_5'UTR	NM_014926	NP_055741	O94933	SLIK3_HUMAN	slit and trk like 3 protein precursor							integral to membrane				ovary(6)|skin(3)|pancreas(1)	10						AAGGTTTCATCGTTCGTGGTT	0.383										HNSCC(40;0.11)			6	16	---	---	---	---	PASS
SPATA16	83893	broad.mit.edu	37	3	172634134	172634134	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:172634134C>T	uc003fin.3	-	9	1634	c.1476G>A	c.(1474-1476)CAG>CAA	p.Q492Q		NM_031955	NP_114161	Q9BXB7	SPT16_HUMAN	spermatogenesis associated 16	492					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)			GACTGATGTCCTGTAGGTAGG	0.463													76	130	---	---	---	---	PASS
NLGN1	22871	broad.mit.edu	37	3	173525588	173525588	+	Silent	SNP	C	T	T	rs148161018		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:173525588C>T	uc003fio.1	+	4	1035	c.612C>T	c.(610-612)ATC>ATT	p.I204I	NLGN1_uc010hww.1_Silent_p.I244I|NLGN1_uc003fip.1_Silent_p.I204I	NM_014932	NP_055747	Q8N2Q7	NLGN1_HUMAN	neuroligin 1	221	Extracellular (Potential).				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)			GCAATGTGATCGTCATCACAG	0.383													19	24	---	---	---	---	PASS
NAALADL2	254827	broad.mit.edu	37	3	174951718	174951718	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:174951718C>T	uc003fit.2	+						NAALADL2_uc003fiu.1_Intron|NAALADL2_uc010hwy.1_Intron	NM_207015	NP_996898	Q58DX5	NADL2_HUMAN	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)		AAATTTATTTCAGAAATTTGG	0.284													12	28	---	---	---	---	PASS
MFN1	55669	broad.mit.edu	37	3	179069770	179069770	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:179069770C>T	uc003fjs.2	+	3	321	c.195C>T	c.(193-195)TCC>TCT	p.S65S	MFN1_uc010hxb.2_RNA|MFN1_uc003fjt.2_Silent_p.S93S	NM_033540	NP_284941	Q8IWA4	MFN1_HUMAN	mitofusin 1	65	Cytoplasmic (Potential).				mitochondrial fusion	integral to membrane|mitochondrial outer membrane	GTP binding|GTPase activity			ovary(2)|large_intestine(1)	3	all_cancers(143;1.67e-16)|Ovarian(172;0.0172)|Breast(254;0.155)		OV - Ovarian serous cystadenocarcinoma(80;5.78e-26)|GBM - Glioblastoma multiforme(14;0.00225)|BRCA - Breast invasive adenocarcinoma(182;0.0923)			ACAAGCTTTCCATCATTGGTG	0.378													37	99	---	---	---	---	PASS
PEX5L	51555	broad.mit.edu	37	3	179537722	179537722	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:179537722C>T	uc003fki.1	-	9	995	c.865G>A	c.(865-867)GAA>AAA	p.E289K	PEX5L_uc011bqd.1_Missense_Mutation_p.E246K|PEX5L_uc011bqe.1_Missense_Mutation_p.E97K|PEX5L_uc011bqf.1_Missense_Mutation_p.E181K|PEX5L_uc003fkj.1_Missense_Mutation_p.E254K|PEX5L_uc010hxd.1_Missense_Mutation_p.E287K|PEX5L_uc011bqg.1_Missense_Mutation_p.E265K|PEX5L_uc011bqh.1_Missense_Mutation_p.E230K	NM_016559	NP_057643	Q8IYB4	PEX5R_HUMAN	peroxisomal biogenesis factor 5-like	289					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)			CGAGCCATTTCTTCCCATTCT	0.438													19	53	---	---	---	---	PASS
TTC14	151613	broad.mit.edu	37	3	180325560	180325560	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:180325560C>T	uc003fkk.2	+						TTC14_uc003fkl.2_Missense_Mutation_p.P433S|TTC14_uc003fkm.2_Intron	NM_133462	NP_597719	Q96N46	TTC14_HUMAN	tetratricopeptide repeat domain 14 isoform a								RNA binding			ovary(1)	1	all_cancers(143;9.31e-15)|Ovarian(172;0.0212)		OV - Ovarian serous cystadenocarcinoma(80;5.62e-23)|GBM - Glioblastoma multiforme(14;0.000558)			GCAGGTGATTCCTTATTTCCT	0.313													11	34	---	---	---	---	PASS
CCDC39	339829	broad.mit.edu	37	3	180359792	180359792	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:180359792C>T	uc010hxe.2	-	13	1978	c.1863G>A	c.(1861-1863)CGG>CGA	p.R621R	CCDC39_uc003fkn.2_RNA	NM_181426	NP_852091	Q9UFE4	CCD39_HUMAN	coiled-coil domain containing 39	621					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)			TTATGTTTTCCCGTTCTTGAT	0.383													19	34	---	---	---	---	PASS
LAMP3	27074	broad.mit.edu	37	3	182872191	182872191	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:182872191G>A	uc003flh.3	-							NM_014398	NP_055213	Q9UQV4	LAMP3_HUMAN	lysosomal-associated membrane protein 3						cell proliferation	integral to membrane|lysosomal membrane				ovary(2)|central_nervous_system(1)	3	all_cancers(143;9.14e-14)|Ovarian(172;0.0355)		all cancers(12;2.91e-44)|Epithelial(37;5.52e-38)|LUSC - Lung squamous cell carcinoma(7;7.12e-25)|Lung(8;6.39e-23)|OV - Ovarian serous cystadenocarcinoma(80;4.16e-21)			TGAAAATTAGGAAATAAAAGT	0.368													11	32	---	---	---	---	PASS
KLHL6	89857	broad.mit.edu	37	3	183211925	183211925	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:183211925C>T	uc003flr.2	-	5	1350	c.1292G>A	c.(1291-1293)GGC>GAC	p.G431D	KLHL6_uc003fls.1_RNA|KLHL6_uc003flt.1_3'UTR|KLHL6_uc010hxk.1_RNA	NM_130446	NP_569713	Q8WZ60	KLHL6_HUMAN	kelch-like 6	431	Kelch 3.									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)			TCTCTGTAAGCCGTCAAAGCC	0.458													38	91	---	---	---	---	PASS
YEATS2	55689	broad.mit.edu	37	3	183524833	183524833	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:183524833C>T	uc003fly.2	+	28	4159	c.3964C>T	c.(3964-3966)CTG>TTG	p.L1322L	uc003fma.1_5'Flank	NM_018023	NP_060493	Q9ULM3	YETS2_HUMAN	YEATS domain containing 2	1322					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)			CAAGTTCTACCTGCCACCAAC	0.498													18	38	---	---	---	---	PASS
ABCC5	10057	broad.mit.edu	37	3	183696426	183696426	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:183696426C>T	uc003fmg.2	-	9	1326	c.1161G>A	c.(1159-1161)GAG>GAA	p.E387E	ABCC5_uc011bqt.1_5'UTR|ABCC5_uc010hxl.2_Silent_p.E387E	NM_005688	NP_005679	O15440	MRP5_HUMAN	ATP-binding cassette, sub-family C, member 5	387	ABC transmembrane type-1 1.					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)			TCCGACGCTCCTCCTCGCGGA	0.483													15	29	---	---	---	---	PASS
ABCC5	10057	broad.mit.edu	37	3	183700297	183700297	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:183700297A>T	uc003fmg.2	-	7	1106	c.941T>A	c.(940-942)ATT>AAT	p.I314N	ABCC5_uc011bqt.1_5'UTR|ABCC5_uc010hxl.2_Missense_Mutation_p.I314N	NM_005688	NP_005679	O15440	MRP5_HUMAN	ATP-binding cassette, sub-family C, member 5	314	ABC transmembrane type-1 1.|Helical; (Potential).					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)			TGGTCCCAGAATAATTACATT	0.502													14	38	---	---	---	---	PASS
ABCC5	10057	broad.mit.edu	37	3	183700298	183700298	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:183700298T>A	uc003fmg.2	-	7	1105	c.940A>T	c.(940-942)ATT>TTT	p.I314F	ABCC5_uc011bqt.1_5'UTR|ABCC5_uc010hxl.2_Missense_Mutation_p.I314F	NM_005688	NP_005679	O15440	MRP5_HUMAN	ATP-binding cassette, sub-family C, member 5	314	ABC transmembrane type-1 1.|Helical; (Potential).					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)			GGTCCCAGAATAATTACATTA	0.502													15	37	---	---	---	---	PASS
ABCC5	10057	broad.mit.edu	37	3	183703145	183703145	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:183703145G>A	uc003fmg.2	-						ABCC5_uc011bqt.1_Intron|ABCC5_uc010hxl.2_Intron|ABCC5_uc003fmh.2_Silent_p.L205L|ABCC5_uc010hxm.2_RNA|ABCC5_uc010hxn.2_Intron|ABCC5_uc010hxo.2_3'UTR	NM_005688	NP_005679	O15440	MRP5_HUMAN	ATP-binding cassette, sub-family C, member 5							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)			TCTGACCGCAGAATACAGCCA	0.483													55	141	---	---	---	---	PASS
ECE2	9718	broad.mit.edu	37	3	184008959	184008959	+	Missense_Mutation	SNP	G	A	A	rs138732933	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:184008959G>A	uc003fni.3	+	17	2358	c.2320G>A	c.(2320-2322)GGC>AGC	p.G774S	ECE2_uc011brh.1_Missense_Mutation_p.G627S|ECE2_uc003fnl.3_Missense_Mutation_p.G702S|ECE2_uc003fnm.3_Missense_Mutation_p.G656S|ECE2_uc003fnk.3_Missense_Mutation_p.G627S|ECE2_uc011bri.1_Missense_Mutation_p.G689S|ECE2_uc010hxv.2_3'UTR	NM_014693	NP_055508	O60344	ECE2_HUMAN	endothelin converting enzyme 2 isoform A	774	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)			GAGGCTCAACGGCCGCCAGAC	0.622													12	40	---	---	---	---	PASS
EIF4G1	1981	broad.mit.edu	37	3	184049252	184049252	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:184049252C>T	uc003fnp.2	+						EIF4G1_uc003fnt.2_Intron|EIF4G1_uc003fnq.2_Intron|EIF4G1_uc003fnr.2_Intron|EIF4G1_uc010hxx.2_Intron|EIF4G1_uc003fns.2_Intron|EIF4G1_uc010hxy.2_Intron|EIF4G1_uc003fnv.3_Intron|EIF4G1_uc003fnu.3_Intron|EIF4G1_uc003fnw.2_Intron|EIF4G1_uc003fnx.2_Intron|EIF4G1_uc003fny.3_Intron|EIF4G1_uc003foa.2_Intron	NM_198241	NP_937884	Q04637	IF4G1_HUMAN	eukaryotic translation initiation factor 4						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)			GGGCCTTTTCCATTGCAGAAG	0.557													48	117	---	---	---	---	PASS
FAM131A	131408	broad.mit.edu	37	3	184059850	184059850	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:184059850C>T	uc003fog.2	+	1	1593	c.229C>T	c.(229-231)CCA>TCA	p.P77S	FAM131A_uc003fob.1_Intron|FAM131A_uc003foc.2_Intron|FAM131A_uc003foe.2_Intron	NM_144635	NP_653236	Q6UXB0	F131A_HUMAN	hypothetical protein LOC131408 precursor	77						extracellular region				breast(1)	1	all_cancers(143;1.06e-10)|Ovarian(172;0.0339)		Epithelial(37;1.53e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)			TCCCCTATCTCCAGGTATTTC	0.597													64	101	---	---	---	---	PASS
CLCN2	1181	broad.mit.edu	37	3	184071921	184071921	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:184071921G>A	uc003foi.2	-	15	1813	c.1689C>T	c.(1687-1689)CCC>CCT	p.P563P	CLCN2_uc003foh.2_Silent_p.P87P|CLCN2_uc010hya.1_Silent_p.P546P|CLCN2_uc011brl.1_Silent_p.P563P|CLCN2_uc011brm.1_Silent_p.P519P	NM_004366	NP_004357	P51788	CLCN2_HUMAN	chloride channel 2	563	Cytoplasmic (By similarity).					chloride channel complex	voltage-gated chloride channel activity				0	all_cancers(143;6.66e-11)|Ovarian(172;0.0339)		Epithelial(37;2.22e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Lubiprostone(DB01046)	CAGGCAGGTAGGGCAGTTTCT	0.627											OREG0015949	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	14	25	---	---	---	---	PASS
CLCN2	1181	broad.mit.edu	37	3	184075218	184075218	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:184075218C>T	uc003foi.2	-	8	954	c.830G>A	c.(829-831)CGG>CAG	p.R277Q	CLCN2_uc003foh.2_5'Flank|CLCN2_uc010hya.1_Missense_Mutation_p.R277Q|CLCN2_uc011brl.1_Missense_Mutation_p.R277Q|CLCN2_uc011brm.1_Missense_Mutation_p.R233Q|CLCN2_uc011brn.1_Missense_Mutation_p.R277Q	NM_004366	NP_004357	P51788	CLCN2_HUMAN	chloride channel 2	277	Helical; (By similarity).					chloride channel complex	voltage-gated chloride channel activity				0	all_cancers(143;6.66e-11)|Ovarian(172;0.0339)		Epithelial(37;2.22e-33)|OV - Ovarian serous cystadenocarcinoma(80;2.72e-22)		Lubiprostone(DB01046)	GAAGAAGCCCCGCCAGTAGTT	0.637													28	51	---	---	---	---	PASS
CHRD	8646	broad.mit.edu	37	3	184106703	184106703	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:184106703G>A	uc003fov.2	+	22	2978	c.2732G>A	c.(2731-2733)CGG>CAG	p.R911Q	CHRD_uc003fow.2_Missense_Mutation_p.R541Q|CHRD_uc003fox.2_Missense_Mutation_p.R911Q|CHRD_uc003foy.2_Missense_Mutation_p.R541Q|CHRD_uc010hyc.2_Missense_Mutation_p.R501Q|CHRD_uc011brr.1_Missense_Mutation_p.R453Q	NM_003741	NP_003732	Q9H2X0	CHRD_HUMAN	chordin precursor	911	VWFC 4.				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)			CACTGTGAGCGGGATGACTGT	0.622													4	22	---	---	---	---	PASS
EPHB3	2049	broad.mit.edu	37	3	184297258	184297258	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:184297258C>T	uc003foz.2	+							NM_004443	NP_004434	P54753	EPHB3_HUMAN	ephrin receptor EphB3 precursor							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)			ACCTCTTCTCCCTCCAGTTGC	0.567													12	24	---	---	---	---	PASS
MAP3K13	9175	broad.mit.edu	37	3	185191163	185191163	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:185191163C>T	uc010hyf.2	+	12	2310	c.2044C>T	c.(2044-2046)CCA>TCA	p.P682S	MAP3K13_uc011brt.1_Missense_Mutation_p.P475S|MAP3K13_uc011bru.1_Missense_Mutation_p.P538S|MAP3K13_uc003fpi.2_Missense_Mutation_p.P682S|MAP3K13_uc010hyg.2_Missense_Mutation_p.P372S	NM_004721	NP_004712	O43283	M3K13_HUMAN	mitogen-activated protein kinase kinase kinase	682					activation of MAPKK activity|JNK cascade|positive regulation of NF-kappaB transcription factor activity|protein autophosphorylation	cytoplasm|membrane|membrane fraction	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			ovary(2)|skin(1)	3	all_cancers(143;7.21e-11)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;1.93e-20)			CCTGCGGAGCCCACTCAGCAA	0.592													32	79	---	---	---	---	PASS
DGKG	1608	broad.mit.edu	37	3	185960312	185960312	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:185960312G>A	uc003fqa.2	-	20	2344	c.1807C>T	c.(1807-1809)CCT>TCT	p.P603S	DGKG_uc003fqb.2_Missense_Mutation_p.P564S|DGKG_uc003fqc.2_Missense_Mutation_p.P578S|DGKG_uc011brx.1_Missense_Mutation_p.P544S	NM_001346	NP_001337	P49619	DGKG_HUMAN	diacylglycerol kinase gamma isoform 1	603					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)	AATTTTTCAGGATGTTTCTCT	0.532											OREG0015965	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	32	---	---	---	---	PASS
RFC4	5984	broad.mit.edu	37	3	186522462	186522462	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:186522462G>A	uc003fqz.2	-	2	264	c.41C>T	c.(40-42)CCC>CTC	p.P14L	RFC4_uc011bsc.1_Missense_Mutation_p.P14L|RFC4_uc011bsd.1_Missense_Mutation_p.P14L	NM_002916	NP_002907	P35249	RFC4_HUMAN	replication factor C 4	14					cell cycle checkpoint|DNA strand elongation involved in DNA replication|nucleotide-excision repair, DNA gap filling|phosphatidylinositol-mediated signaling|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			breast(2)|upper_aerodigestive_tract(1)|ovary(1)|large_intestine(1)	5	all_cancers(143;2.92e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;7.41e-21)	GBM - Glioblastoma multiforme(93;0.0739)		GGTCAGCGGGGGTTTAGTACT	0.448													37	56	---	---	---	---	PASS
ADIPOQ	9370	broad.mit.edu	37	3	186572227	186572227	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:186572227C>T	uc003fra.2	+	3	553	c.469C>T	c.(469-471)CTG>TTG	p.L157L	ADIPOQ_uc010hyy.2_Silent_p.L157L	NM_004797	NP_004788	Q15848	ADIPO_HUMAN	adiponectin precursor	157	C1q.				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)		CATTCCTGGGCTGTACTACTT	0.448													30	68	---	---	---	---	PASS
MASP1	5648	broad.mit.edu	37	3	186953544	186953544	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:186953544G>A	uc003frh.1	-						MASP1_uc003fri.2_Silent_p.S705S|MASP1_uc003frj.2_Silent_p.S674S	NM_001879	NP_001870	P48740	MASP1_HUMAN	mannan-binding lectin serine protease 1 isoform						complement activation, lectin pathway|negative regulation of complement activation|proteolysis	extracellular space	calcium ion binding|calcium-dependent protein binding|protein binding|protein homodimerization activity|serine-type endopeptidase activity			ovary(2)|breast(1)|liver(1)	4	all_cancers(143;5.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;3.49e-18)	GBM - Glioblastoma multiforme(93;0.0366)		CCACGTAATTGGAGACCTTTG	0.587													26	29	---	---	---	---	PASS
MASP1	5648	broad.mit.edu	37	3	186980425	186980425	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:186980425G>A	uc003frh.1	-	3	653	c.321C>T	c.(319-321)GTC>GTT	p.V107V	MASP1_uc003fri.2_Silent_p.V107V|MASP1_uc003frj.2_Silent_p.V76V|MASP1_uc003frk.1_Silent_p.V107V|MASP1_uc011bse.1_Silent_p.V81V	NM_001879	NP_001870	P48740	MASP1_HUMAN	mannan-binding lectin serine protease 1 isoform	107	Interaction with FCN2.|Interaction with MBL2.|Homodimerization (By similarity).|CUB 1.				complement activation, lectin pathway|negative regulation of complement activation|proteolysis	extracellular space	calcium ion binding|calcium-dependent protein binding|protein binding|protein homodimerization activity|serine-type endopeptidase activity			ovary(2)|breast(1)|liver(1)	4	all_cancers(143;5.33e-12)|Ovarian(172;0.0339)		OV - Ovarian serous cystadenocarcinoma(80;3.49e-18)	GBM - Glioblastoma multiforme(93;0.0366)		CAGGGGAGAGGACCACCTCCT	0.547													19	39	---	---	---	---	PASS
RTP2	344892	broad.mit.edu	37	3	187416809	187416809	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:187416809G>A	uc003fro.1	-							NM_001004312	NP_001004312	Q5QGT7	RTP2_HUMAN	receptor transporting protein 2						protein insertion into membrane	cell surface|integral to membrane|plasma membrane	olfactory receptor binding				0	all_cancers(143;4.06e-12)|Ovarian(172;0.0418)		OV - Ovarian serous cystadenocarcinoma(80;1.76e-18)	GBM - Glioblastoma multiforme(93;0.0515)		CCTGCCGGGAGGAGAAGGAGG	0.627													8	9	---	---	---	---	PASS
LPP	4026	broad.mit.edu	37	3	188202419	188202419	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:188202419C>T	uc003frs.1	+	4	479	c.233C>T	c.(232-234)TCC>TTC	p.S78F	LPP_uc011bsg.1_Missense_Mutation_p.S78F|LPP_uc011bsi.1_Missense_Mutation_p.S78F|LPP_uc003frt.2_Missense_Mutation_p.S78F	NM_005578	NP_005569	Q93052	LPP_HUMAN	LIM domain containing preferred translocation	78	Pro-rich.				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)		CTAGATGATTCCAGTGCCCTT	0.418			T	HMGA2|MLL|C12orf9	lipoma|leukemia								32	71	---	---	---	---	PASS
TP63	8626	broad.mit.edu	37	3	189587146	189587146	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:189587146C>T	uc003fry.2	+	9	1252	c.1163C>T	c.(1162-1164)ACA>ATA	p.T388I	TP63_uc003frx.2_Missense_Mutation_p.T388I|TP63_uc003frz.2_Missense_Mutation_p.T388I|TP63_uc010hzc.1_Missense_Mutation_p.T388I|TP63_uc003fsa.2_Missense_Mutation_p.T294I|TP63_uc003fsb.2_Missense_Mutation_p.T294I|TP63_uc003fsc.2_Missense_Mutation_p.T294I|TP63_uc003fsd.2_Missense_Mutation_p.T294I|TP63_uc010hzd.1_Missense_Mutation_p.T209I|TP63_uc003fse.1_Missense_Mutation_p.T265I	NM_003722	NP_003713	Q9H3D4	P63_HUMAN	tumor protein p63 isoform 1	388	Interaction with HIPK2.				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)		ATCCAGATGACATCCATCAAG	0.393									Hay-Wells_syndrome	HNSCC(45;0.13)			10	45	---	---	---	---	PASS
CLDN16	10686	broad.mit.edu	37	3	190106125	190106125	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:190106125G>A	uc003fsi.2	+	1	285	c.217G>A	c.(217-219)GAT>AAT	p.D73N	CLDN16_uc010hze.2_Missense_Mutation_p.D73N	NM_006580	NP_006571	Q9Y5I7	CLD16_HUMAN	claudin 16	73	Cytoplasmic (Potential).				calcium-independent cell-cell adhesion|cellular metal ion homeostasis|excretion	integral to membrane|tight junction	identical protein binding|magnesium ion transmembrane transporter activity|structural molecule activity			ovary(1)	1	all_cancers(143;3.61e-10)|Ovarian(172;0.0991)		Lung(62;2.23e-05)|LUSC - Lung squamous cell carcinoma(58;3.15e-05)	GBM - Glioblastoma multiforme(93;0.018)		CACAATGAGGGATCTTCTTCA	0.517													24	65	---	---	---	---	PASS
CCDC50	152137	broad.mit.edu	37	3	191093368	191093368	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:191093368C>T	uc003fsw.2	+						CCDC50_uc003fsv.2_Silent_p.L322L	NM_174908	NP_777568	Q8IVM0	CCD50_HUMAN	Ymer protein short isoform							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)		AGCTCCACCTCCATGACGCAG	0.458													8	14	---	---	---	---	PASS
ATP13A5	344905	broad.mit.edu	37	3	192993070	192993070	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:192993070C>T	uc011bsq.1	-	30	3418	c.3418G>A	c.(3418-3420)GAA>AAA	p.E1140K		NM_198505	NP_940907	Q4VNC0	AT135_HUMAN	ATPase type 13A5	1140					ATP biosynthetic process|cation transport	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|metal ion binding			ovary(5)|skin(4)|large_intestine(2)	11	all_cancers(143;1.08e-08)|Ovarian(172;0.0386)		OV - Ovarian serous cystadenocarcinoma(49;5.56e-18)|LUSC - Lung squamous cell carcinoma(58;6.08e-06)|Lung(62;6.49e-06)	GBM - Glioblastoma multiforme(46;0.000307)		AGCCAGAGTTCATGATTTTGA	0.458													20	53	---	---	---	---	PASS
LRRC15	131578	broad.mit.edu	37	3	194080933	194080933	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:194080933G>A	uc003ftu.2	-	2	926	c.840C>T	c.(838-840)TCC>TCT	p.S280S	LRRC15_uc003ftt.2_Silent_p.S286S	NM_130830	NP_570843	Q8TF66	LRC15_HUMAN	leucine rich repeat containing 15 isoform b	280	Extracellular (Potential).|LRR 10.					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)		GCTCCTTCAGGGAATTCCCAA	0.557													32	34	---	---	---	---	PASS
ATP13A3	79572	broad.mit.edu	37	3	194147970	194147970	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:194147970G>A	uc003fty.3	-	28	3361	c.2959C>T	c.(2959-2961)CCT>TCT	p.P987S	ATP13A3_uc003ftx.3_5'Flank	NM_024524	NP_078800	Q9H7F0	AT133_HUMAN	ATPase type 13A3	987					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)		TTCCAGGCAGGATTTAAACTC	0.358													8	27	---	---	---	---	PASS
MUC4	4585	broad.mit.edu	37	3	195477834	195477834	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:195477834C>T	uc011bto.1	-	24	15873	c.15413G>A	c.(15412-15414)CGG>CAG	p.R5138Q	MUC4_uc010hzq.2_Missense_Mutation_p.R123Q|MUC4_uc003fuz.2_Missense_Mutation_p.R864Q|MUC4_uc003fva.2_Missense_Mutation_p.R746Q|MUC4_uc003fvb.2_Missense_Mutation_p.R782Q|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_Missense_Mutation_p.R782Q|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_Missense_Mutation_p.R746Q|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_Missense_Mutation_p.R830Q|MUC4_uc011bti.1_Missense_Mutation_p.R830Q|MUC4_uc011btj.1_Missense_Mutation_p.R1007Q|MUC4_uc011btk.1_Missense_Mutation_p.R746Q|MUC4_uc011btl.1_Missense_Mutation_p.R775Q|MUC4_uc011btm.1_Missense_Mutation_p.R955Q|MUC4_uc011btn.1_Missense_Mutation_p.R746Q|MUC4_uc003fvo.2_Missense_Mutation_p.R1030Q|MUC4_uc003fvp.2_Missense_Mutation_p.R979Q	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	2023					cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		CTCACTCCTCCGTGGAACGTG	0.627													26	27	---	---	---	---	PASS
MUC4	4585	broad.mit.edu	37	3	195492231	195492231	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:195492231G>A	uc011bto.1	-	10	13784	c.13324C>T	c.(13324-13326)CGG>TGG	p.R4442W	MUC4_uc003fuz.2_Missense_Mutation_p.R168W|MUC4_uc003fva.2_Missense_Mutation_p.R50W|MUC4_uc003fvb.2_Missense_Mutation_p.R86W|MUC4_uc003fvc.2_RNA|MUC4_uc003fvd.2_RNA|MUC4_uc003fve.2_Missense_Mutation_p.R86W|MUC4_uc010hzr.2_RNA|MUC4_uc011btf.1_Missense_Mutation_p.R50W|MUC4_uc011btg.1_RNA|MUC4_uc011bth.1_Missense_Mutation_p.R134W|MUC4_uc011bti.1_Missense_Mutation_p.R134W|MUC4_uc011btj.1_Missense_Mutation_p.R311W|MUC4_uc011btk.1_Missense_Mutation_p.R50W|MUC4_uc011btl.1_Missense_Mutation_p.R79W|MUC4_uc011btm.1_Missense_Mutation_p.R259W|MUC4_uc011btn.1_Missense_Mutation_p.R50W|MUC4_uc003fvo.2_Missense_Mutation_p.R334W|MUC4_uc003fvp.2_Missense_Mutation_p.R283W|MUC4_uc010hzu.1_Missense_Mutation_p.R1182W	NM_018406	NP_060876	Q99102	MUC4_HUMAN	mucin 4 isoform a	1327	AMOP.				cell-matrix adhesion	integral to plasma membrane|proteinaceous extracellular matrix	ErbB-2 class receptor binding|extracellular matrix constituent, lubricant activity				0	all_cancers(143;1.11e-08)|Ovarian(172;0.0634)|Breast(254;0.206)	Lung NSC(153;0.191)	Epithelial(36;3.72e-24)|all cancers(36;6.22e-22)|OV - Ovarian serous cystadenocarcinoma(49;1.1e-18)|Lung(62;4.65e-05)|LUSC - Lung squamous cell carcinoma(58;5.31e-05)	GBM - Glioblastoma multiforme(46;2.37e-05)		CTGGGCCACCGAGGCTGGCTC	0.627													11	23	---	---	---	---	PASS
KIAA0226	9711	broad.mit.edu	37	3	197427768	197427768	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:197427768G>A	uc003fyc.2	-	7	1160	c.977C>T	c.(976-978)GCC>GTC	p.A326V	KIAA0226_uc003fyd.3_Missense_Mutation_p.A266V|KIAA0226_uc003fye.1_Missense_Mutation_p.A33V|KIAA0226_uc003fyf.2_Missense_Mutation_p.A159V|KIAA0226_uc003fyg.2_Missense_Mutation_p.A319V	NM_014687	NP_055502	Q92622	RUBIC_HUMAN	hypothetical protein LOC9711 isoform 2.	326	Ser-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)		GTTGCCAATGGCCAGGTACTC	0.587													34	26	---	---	---	---	PASS
LRCH3	84859	broad.mit.edu	37	3	197574806	197574806	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:197574806G>A	uc011bul.1	+	12	1449	c.1444G>A	c.(1444-1446)GAG>AAG	p.E482K	LRCH3_uc003fyj.1_Missense_Mutation_p.E482K|LRCH3_uc011bum.1_Missense_Mutation_p.E454K|LRCH3_uc011bun.1_Missense_Mutation_p.E328K|LRCH3_uc003fyk.2_Missense_Mutation_p.E77K	NM_032773	NP_116162	Q96II8	LRCH3_HUMAN	leucine-rich repeats and calponin homology (CH)	482						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)		CACTCGGAGAGAGGCTCAGCT	0.478													34	65	---	---	---	---	PASS
LMLN	89782	broad.mit.edu	37	3	197717443	197717443	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:197717443C>T	uc011buo.1	+	9	965	c.943C>T	c.(943-945)CAA>TAA	p.Q315*	LMLN_uc003fyt.2_Nonsense_Mutation_p.Q263*|LMLN_uc010iar.2_Nonsense_Mutation_p.Q315*|LMLN_uc010ias.2_Nonsense_Mutation_p.Q263*|LMLN_uc003fyu.2_Nonsense_Mutation_p.Q75*	NM_033029	NP_149018	Q96KR4	LMLN_HUMAN	leishmanolysin-like isoform 2	315					cell adhesion|cell division|mitosis|proteolysis	cytoplasm|membrane	metalloendopeptidase activity|zinc ion binding			skin(1)	1	all_cancers(143;1.15e-09)|Ovarian(172;0.0418)|Breast(254;0.0976)	Lung NSC(153;0.132)	Epithelial(36;9.84e-24)|all cancers(36;3.18e-22)|OV - Ovarian serous cystadenocarcinoma(49;5.35e-19)|LUSC - Lung squamous cell carcinoma(58;6.94e-07)|Lung(62;9.92e-07)	GBM - Glioblastoma multiforme(93;0.111)		GGGATTATATCAATGGAGTGA	0.279													18	28	---	---	---	---	PASS
ZNF141	7700	broad.mit.edu	37	4	338216	338216	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:338216C>T	uc003gaa.2	+	4	401	c.223C>T	c.(223-225)CCA>TCA	p.P75S	ZNF141_uc003fzz.2_Missense_Mutation_p.P75S|ZNF141_uc003gab.2_Missense_Mutation_p.P75S	NM_003441	NP_003432	Q15928	ZN141_HUMAN	zinc finger protein 141	75	KRAB.				anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding				0						AGCCAGACCCCCAGGTAGGTG	0.463													16	29	---	---	---	---	PASS
ZNF141	7700	broad.mit.edu	37	4	367492	367492	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:367492C>T	uc003gaa.2	+	5	1444	c.1266C>T	c.(1264-1266)CCC>CCT	p.P422P	ZNF141_uc003gab.2_Intron	NM_003441	NP_003432	Q15928	ZN141_HUMAN	zinc finger protein 141	422					anatomical structure morphogenesis|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter	nucleus	DNA binding|zinc ion binding				0						CAGATAAACCCTACAAATGTA	0.358													47	70	---	---	---	---	PASS
MFSD7	84179	broad.mit.edu	37	4	678526	678526	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:678526G>A	uc003gay.2	-	5	762	c.705C>T	c.(703-705)TTC>TTT	p.F235F	MFSD7_uc003gaw.2_5'UTR|MFSD7_uc003gax.2_Silent_p.F235F|MFSD7_uc003gaz.2_Silent_p.F116F|MFSD7_uc003gba.2_Silent_p.F138F|MFSD7_uc003gbb.1_Silent_p.F171F	NM_032219	NP_115595	Q6UXD7	MFSD7_HUMAN	major facilitator superfamily domain containing	235					transmembrane transport	integral to membrane					0						GCCCATCCAGGAACTTCTCTG	0.672													22	36	---	---	---	---	PASS
NAT8L	339983	broad.mit.edu	37	4	2065478	2065478	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:2065478C>T	uc003geq.1	+							NM_178557	NP_848652	Q8N9F0	NAT8L_HUMAN	N-acetyltransferase 8-like (GCN5-related,							integral to membrane|microsome|mitochondrial membrane|rough endoplasmic reticulum membrane	aspartate N-acetyltransferase activity				0			OV - Ovarian serous cystadenocarcinoma(23;0.0315)			ACCGCCCTATCCCCTGCAGGC	0.677													20	30	---	---	---	---	PASS
POLN	353497	broad.mit.edu	37	4	2082703	2082703	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:2082703G>A	uc003ger.2	-	21	2369	c.2369C>T	c.(2368-2370)TCC>TTC	p.S790F	POLN_uc010icg.1_Missense_Mutation_p.S238F|POLN_uc010ich.1_3'UTR	NM_181808	NP_861524	Q7Z5Q5	DPOLN_HUMAN	DNA-directed DNA polymerase nu	790					DNA repair|DNA replication	nucleus	DNA binding|DNA-directed DNA polymerase activity			kidney(2)|ovary(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(23;0.0955)			CAAGGTGTGGGAAGCAGCCAC	0.602								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					18	41	---	---	---	---	PASS
POLN	353497	broad.mit.edu	37	4	2097593	2097593	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:2097593C>T	uc003ger.2	-	18	2050	c.2050G>A	c.(2050-2052)GTG>ATG	p.V684M	POLN_uc010icg.1_Missense_Mutation_p.V132M|POLN_uc010ich.1_Missense_Mutation_p.V216M	NM_181808	NP_861524	Q7Z5Q5	DPOLN_HUMAN	DNA-directed DNA polymerase nu	684					DNA repair|DNA replication	nucleus	DNA binding|DNA-directed DNA polymerase activity			kidney(2)|ovary(1)|skin(1)	4			OV - Ovarian serous cystadenocarcinoma(23;0.0955)			CCATAGACCACCGCGTACACC	0.577								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					19	43	---	---	---	---	PASS
MXD4	10608	broad.mit.edu	37	4	2252429	2252429	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:2252429C>T	uc003geu.1	-							NM_006454	NP_006445	Q14582	MAD4_HUMAN	MAD4						negative regulation of cell proliferation|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	nucleus	DNA binding|transcription corepressor activity				0						ATGTCCACTTCTAGGGAGAAT	0.592													7	15	---	---	---	---	PASS
GRK4	2868	broad.mit.edu	37	4	3021501	3021501	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:3021501A>T	uc003ggn.1	+	9	1330	c.875A>T	c.(874-876)TAT>TTT	p.Y292F	GRK4_uc003ggo.1_Missense_Mutation_p.Y292F|GRK4_uc003ggp.1_Missense_Mutation_p.Y260F|GRK4_uc003ggq.1_Missense_Mutation_p.Y260F	NM_182982	NP_892027	P32298	GRK4_HUMAN	G protein-coupled receptor kinase 4 isoform	292	Protein kinase.					cell cortex	ATP binding|G-protein coupled receptor kinase activity|signal transducer activity			lung(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		GCCGTTTTCTATGCTGCAGAG	0.483													31	70	---	---	---	---	PASS
HTT	3064	broad.mit.edu	37	4	3188395	3188395	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:3188395C>T	uc011bvq.1	+	39	5089	c.4944C>T	c.(4942-4944)CTC>CTT	p.L1648L		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	1646					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)		CTTCCTCCCTCCGTCCGGTAG	0.413													22	63	---	---	---	---	PASS
HTT	3064	broad.mit.edu	37	4	3188396	3188396	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:3188396C>T	uc011bvq.1	+	39	5090	c.4945C>T	c.(4945-4947)CGT>TGT	p.R1649C		NM_002111	NP_002102	P42858	HD_HUMAN	huntingtin	1647					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)		TTCCTCCCTCCGTCCGGTAGA	0.413													21	63	---	---	---	---	PASS
LRPAP1	4043	broad.mit.edu	37	4	3514746	3514746	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:3514746C>T	uc003ghi.2	-	8	1114	c.1029G>A	c.(1027-1029)CAG>CAA	p.Q343Q	uc003ghh.3_5'Flank	NM_002337	NP_002328	P30533	AMRP_HUMAN	low density lipoprotein receptor-related protein	343	LDL receptor binding (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)		CGGACAGGTCCTGCAGATGCT	0.627													8	12	---	---	---	---	PASS
ZBTB49	166793	broad.mit.edu	37	4	4314796	4314796	+	Missense_Mutation	SNP	G	A	A	rs147341179		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:4314796G>A	uc003ghu.2	+	5	1506	c.1331G>A	c.(1330-1332)CGG>CAG	p.R444Q	ZBTB49_uc003ghv.2_5'UTR|ZBTB49_uc010icy.2_Intron|ZBTB49_uc010icz.2_Intron	NM_145291	NP_660334	Q6ZSB9	ZBT49_HUMAN	zinc finger protein 509	444	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2						CACTTACGACGGCATTCTGGT	0.408													18	28	---	---	---	---	PASS
STK32B	55351	broad.mit.edu	37	4	5468460	5468460	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:5468460G>A	uc003gih.1	+	10	1004	c.940G>A	c.(940-942)GAG>AAG	p.E314K	STK32B_uc010ida.1_Missense_Mutation_p.E267K	NM_018401	NP_060871	Q9NY57	ST32B_HUMAN	serine/threonine kinase 32B	314							ATP binding|metal ion binding|protein serine/threonine kinase activity	p.E314*(1)		breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						TCCCACATTTGAGCTTGAAGA	0.443													10	30	---	---	---	---	PASS
EVC2	132884	broad.mit.edu	37	4	5624517	5624517	+	Missense_Mutation	SNP	C	T	T	rs144270330	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:5624517C>T	uc003gij.2	-	14	2302	c.2248G>A	c.(2248-2250)GAG>AAG	p.E750K	EVC2_uc011bwb.1_Missense_Mutation_p.E190K|EVC2_uc003gik.2_Missense_Mutation_p.E670K	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	750	Potential.					integral to membrane				large_intestine(3)|ovary(2)	5						CGCCGCAGCTCGTCGGTGGCC	0.652													23	29	---	---	---	---	PASS
EVC2	132884	broad.mit.edu	37	4	5664932	5664932	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:5664932G>A	uc003gij.2	-	9	1101	c.1047C>T	c.(1045-1047)ACC>ACT	p.T349T	EVC2_uc011bwb.1_5'UTR|EVC2_uc003gik.2_Silent_p.T269T	NM_147127	NP_667338	Q86UK5	LBN_HUMAN	limbin	349						integral to membrane				large_intestine(3)|ovary(2)	5						CATCAGCTGAGGTGAACGGCA	0.483													27	55	---	---	---	---	PASS
C4orf50	389197	broad.mit.edu	37	4	5966796	5966796	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:5966796G>A	uc003git.1	-	6	624	c.534C>T	c.(532-534)CCC>CCT	p.P178P		NM_207405	NP_997288	Q6ZRC1	CD050_HUMAN	hypothetical protein LOC389197	178										pancreas(2)|breast(1)	3						ACTCCGGCTCGGGAATAGGCC	0.463													13	24	---	---	---	---	PASS
JAKMIP1	152789	broad.mit.edu	37	4	6114460	6114460	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:6114460C>T	uc003giu.3	-	2	394	c.118G>A	c.(118-120)GAA>AAA	p.E40K	JAKMIP1_uc010idb.1_Missense_Mutation_p.E40K|JAKMIP1_uc010idc.1_Missense_Mutation_p.E40K|JAKMIP1_uc010idd.1_Missense_Mutation_p.E40K|JAKMIP1_uc011bwc.1_Missense_Mutation_p.E40K|JAKMIP1_uc003giv.3_Missense_Mutation_p.E40K|JAKMIP1_uc010ide.2_Missense_Mutation_p.E40K	NM_144720	NP_653321	Q96N16	JKIP1_HUMAN	janus kinase and microtubule interacting protein	40	Potential.|Mediates association with microtubules.				protein transport	cytoplasm|membrane|microtubule|peripheral to membrane of membrane fraction|ribonucleoprotein complex	GABA receptor binding|RNA binding			large_intestine(1)|pancreas(1)|ovary(1)|skin(1)	4						TTGCTTTTTTCCTGCTGGAAC	0.602													25	54	---	---	---	---	PASS
WFS1	7466	broad.mit.edu	37	4	6302909	6302909	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:6302909G>A	uc003giy.2	+	8	1553	c.1387G>A	c.(1387-1389)GTC>ATC	p.V463I	WFS1_uc003gix.2_Missense_Mutation_p.V463I|WFS1_uc003giz.2_Missense_Mutation_p.V281I	NM_001145853	NP_001139325	O76024	WFS1_HUMAN	wolframin	463			Missing (in WFS).		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)		GGCCACCGAGGTCACCGCCGG	0.642													27	35	---	---	---	---	PASS
TBC1D14	57533	broad.mit.edu	37	4	6925544	6925544	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:6925544C>A	uc011bwg.1	+	2	507	c.428C>A	c.(427-429)CCG>CAG	p.P143Q	TBC1D14_uc003gjs.3_Missense_Mutation_p.P143Q	NM_001113361	NP_001106832	Q9P2M4	TBC14_HUMAN	TBC1 domain family, member 14 isoform a	143						intracellular	Rab GTPase activator activity			ovary(1)|pancreas(1)	2						CTCTATAGCCCGACCTCCAAA	0.602													5	139	---	---	---	---	PASS
ABLIM2	84448	broad.mit.edu	37	4	8108231	8108231	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:8108231G>A	uc003gko.2	-	2	287	c.144C>T	c.(142-144)TTC>TTT	p.F48F	ABLIM2_uc003gkj.3_Silent_p.F48F|ABLIM2_uc003gkm.3_Silent_p.F48F|ABLIM2_uc003gkp.2_Silent_p.F48F|ABLIM2_uc003gkq.2_Silent_p.F48F|ABLIM2_uc003gkr.2_Silent_p.F48F|ABLIM2_uc003gks.3_Silent_p.F48F|ABLIM2_uc011bwl.1_Silent_p.F53F	NM_001130084	NP_001123556	Q6H8Q1	ABLM2_HUMAN	actin binding LIM protein family, member 2	48	LIM zinc-binding 1.				axon guidance|cytoskeleton organization	actin cytoskeleton|cytoplasm|intermediate filament cytoskeleton|nucleus	actin binding|zinc ion binding			pancreas(3)	3						CTTTACAGACGAAGCACTTGA	0.627													3	4	---	---	---	---	PASS
SH3TC1	54436	broad.mit.edu	37	4	8229801	8229801	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:8229801C>T	uc003gkv.3	+	12	2481	c.2380C>T	c.(2380-2382)CAG>TAG	p.Q794*	SH3TC1_uc003gkw.3_Nonsense_Mutation_p.Q718*|SH3TC1_uc003gkx.3_RNA|SH3TC1_uc003gky.2_5'Flank	NM_018986	NP_061859	Q8TE82	S3TC1_HUMAN	SH3 domain and tetratricopeptide repeats 1	794	TPR 4.						binding			large_intestine(2)|pancreas(1)	3						CAGCTTGGCCCAGCTGTACAG	0.672													8	13	---	---	---	---	PASS
DRD5	1816	broad.mit.edu	37	4	9784494	9784494	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:9784494G>A	uc003gmb.3	+	1	1237	c.841G>A	c.(841-843)GAC>AAC	p.D281N		NM_000798	NP_000789	P21918	DRD5_HUMAN	dopamine receptor D5	281	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)	CTGCGCGCCCGACACCAGCCT	0.632													11	33	---	---	---	---	PASS
DRD5	1816	broad.mit.edu	37	4	9784694	9784694	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:9784694C>T	uc003gmb.3	+	1	1437	c.1041C>T	c.(1039-1041)TTC>TTT	p.F347F		NM_000798	NP_000789	P21918	DRD5_HUMAN	dopamine receptor D5	347	Helical; Name=7; (Potential).				activation of adenylate cyclase activity by dopamine receptor signaling pathway|activation of phospholipase C activity by dopamine receptor signaling pathway|cellular calcium ion homeostasis|negative regulation of NAD(P)H oxidase activity|reactive oxygen species metabolic process|synaptic transmission, dopaminergic	integral to plasma membrane				skin(1)	1					Apomorphine(DB00714)|Carphenazine(DB01038)|Fenoldopam(DB00800)|Zuclopenthixol(DB01624)	TCGTCTGGTTCGGCTGGGCTA	0.602													24	56	---	---	---	---	PASS
DRD5	1816	broad.mit.edu	37	4	9784866	9784866	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:9784866G>A	uc003gmb.3	+	1	1609	c.1213G>A	c.(1213-1215)GAA>AAA	p.E405K		NM_000798	NP_000789	P21918	DRD5_HUMAN	dopamine receptor D5	405	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)	CTTCCACAAGGAAATCGCAGC	0.587													22	27	---	---	---	---	PASS
SLC2A9	56606	broad.mit.edu	37	4	9828230	9828230	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:9828230G>A	uc003gmc.2	-						SLC2A9_uc003gmd.2_Intron	NM_020041	NP_064425	Q9NRM0	GTR9_HUMAN	solute carrier family 2, member 9 protein						glucose transport|urate metabolic process	integral to membrane|plasma membrane	sugar:hydrogen symporter activity			ovary(3)	3						CTTTTCTGTGGAAAGGCAGAG	0.378													23	18	---	---	---	---	PASS
SLIT2	9353	broad.mit.edu	37	4	20525491	20525491	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:20525491G>A	uc003gpr.1	+	13	1443	c.1239G>A	c.(1237-1239)AAG>AAA	p.K413K	SLIT2_uc003gps.1_Silent_p.K413K	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	413	LRR 11.				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						CCATCGCCAAGGGGACCTTTT	0.428													40	99	---	---	---	---	PASS
SLIT2	9353	broad.mit.edu	37	4	20525678	20525678	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:20525678A>T	uc003gpr.1	+	14	1520	c.1316A>T	c.(1315-1317)AAG>ATG	p.K439M	SLIT2_uc003gps.1_Missense_Mutation_p.K439M	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	439	LRRCT 2.				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						TGCCATCTCAAGTGGCTAGCG	0.483													26	53	---	---	---	---	PASS
SLIT2	9353	broad.mit.edu	37	4	20619197	20619197	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:20619197G>A	uc003gpr.1	+	36	4476	c.4272G>A	c.(4270-4272)GGG>GGA	p.G1424G	SLIT2_uc003gps.1_Silent_p.G1416G	NM_004787	NP_004778	O94813	SLIT2_HUMAN	slit homolog 2 precursor	1424					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						GCAAGCATGGGAAGTGCAGGC	0.567													11	19	---	---	---	---	PASS
KCNIP4	80333	broad.mit.edu	37	4	20884230	20884230	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:20884230C>T	uc003gqe.2	-						KCNIP4_uc003gqf.1_Intron|KCNIP4_uc003gqg.1_Intron|KCNIP4_uc003gqh.1_Intron|KCNIP4_uc003gqi.1_Intron|KCNIP4_uc010iel.2_Intron|KCNIP4_uc003gqd.3_Missense_Mutation_p.S18N	NM_147182	NP_671711	Q6PIL6	KCIP4_HUMAN	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)				AACAAACTTGCTTTGAATAGC	0.433													6	16	---	---	---	---	PASS
KCNIP4	80333	broad.mit.edu	37	4	21699022	21699022	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:21699022C>T	uc003gqh.1	-	1	297	c.39G>A	c.(37-39)CTG>CTA	p.L13L	KCNIP4_uc003gqi.1_Intron	NM_001035003	NP_001030175	Q6PIL6	KCIP4_HUMAN	Kv channel interacting protein 4 isoform 5	Error:Variant_position_missing_in_Q6PIL6_after_alignment						plasma membrane	calcium ion binding|potassium channel activity|protein binding|voltage-gated ion channel activity				0		Breast(46;0.134)				GGGCAAATTTCAGTATTTCAC	0.348													21	35	---	---	---	---	PASS
GBA3	57733	broad.mit.edu	37	4	22749332	22749332	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:22749332C>T	uc003gqp.3	+	3	791	c.700C>T	c.(700-702)CCC>TCC	p.P234S	GBA3_uc010iep.2_Intron|GBA3_uc011bxo.1_Missense_Mutation_p.P235S	NM_020973	NP_066024	Q9H227	GBA3_HUMAN	cytosolic beta-glucosidase isoform a	234					glycoside catabolic process|glycosylceramide catabolic process	cytosol	beta-galactosidase activity|beta-glucosidase activity|cation binding|glycosylceramidase activity				0						ACCAGCAGATCCCAACTCAGT	0.433													45	116	---	---	---	---	PASS
PPARGC1A	10891	broad.mit.edu	37	4	23803347	23803347	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:23803347C>T	uc003gqs.2	-						PPARGC1A_uc003gqt.2_Intron	NM_013261	NP_037393	Q9UBK2	PRGC1_HUMAN	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)				ACAATAAAATCCATACCTAGG	0.398													12	19	---	---	---	---	PASS
ANAPC4	29945	broad.mit.edu	37	4	25416277	25416277	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:25416277C>T	uc003gro.2	+	25	1910	c.1781C>T	c.(1780-1782)TCA>TTA	p.S594L	ANAPC4_uc003grp.2_Missense_Mutation_p.S480L|ANAPC4_uc003grq.2_Missense_Mutation_p.S47L	NM_013367	NP_037499	Q9UJX5	APC4_HUMAN	anaphase-promoting complex subunit 4	594					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)				CTAGAAGATTCACTTTATAAA	0.234													8	16	---	---	---	---	PASS
SEL1L3	23231	broad.mit.edu	37	4	25819808	25819808	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:25819808T>G	uc003gru.3	-	9	1668	c.1516A>C	c.(1516-1518)AAA>CAA	p.K506Q		NM_015187	NP_056002	Q68CR1	SE1L3_HUMAN	sel-1 suppressor of lin-12-like 3	506						integral to membrane	binding				0						CTGGGGTGTTTGTCTTTCAGC	0.557													13	26	---	---	---	---	PASS
ARAP2	116984	broad.mit.edu	37	4	36122955	36122955	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:36122955G>A	uc003gsq.1	-							NM_015230	NP_056045	Q8WZ64	ARAP2_HUMAN	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						AACCCTGTCAGAGAAAAGCAT	0.338													23	53	---	---	---	---	PASS
TBC1D1	23216	broad.mit.edu	37	4	38091726	38091726	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:38091726C>T	uc003gtb.2	+	13	2567	c.2224C>T	c.(2224-2226)CAG>TAG	p.Q742*	TBC1D1_uc011byd.1_Nonsense_Mutation_p.Q836*|TBC1D1_uc010ifd.2_Nonsense_Mutation_p.Q529*|TBC1D1_uc011byf.1_Nonsense_Mutation_p.Q613*	NM_015173	NP_055988	Q86TI0	TBCD1_HUMAN	TBC1 (tre-2/USP6, BUB2, cdc16) domain family,	742						nucleus	Rab GTPase activator activity			ovary(1)	1						GAAGGAAAATCAGAAGCTCCA	0.438													28	50	---	---	---	---	PASS
TLR10	81793	broad.mit.edu	37	4	38775613	38775613	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:38775613G>A	uc003gti.2	-	2	1978	c.1599C>T	c.(1597-1599)TTC>TTT	p.F533F	TLR10_uc003gtj.2_Silent_p.F533F|TLR10_uc003gtk.2_Silent_p.F533F	NM_030956	NP_112218	Q9BXR5	TLR10_HUMAN	toll-like receptor 10 precursor	533	Extracellular (Potential).|LRRCT.				inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway	integral to membrane|plasma membrane	transmembrane receptor activity			lung(1)|breast(1)	2						CAAGCTGAATGAAATTTTTTA	0.403													16	55	---	---	---	---	PASS
TMEM156	80008	broad.mit.edu	37	4	38990513	38990513	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:38990513G>T	uc003gto.2	-	4	805	c.697C>A	c.(697-699)CGC>AGC	p.R233S	TMEM156_uc010ifj.2_Missense_Mutation_p.R233S	NM_024943	NP_079219	Q8N614	TM156_HUMAN	transmembrane protein 156	233	Cytoplasmic (Potential).					integral to membrane				skin(1)	1						AGTATTTTGCGGATAGTGAGG	0.353													5	138	---	---	---	---	PASS
KLB	152831	broad.mit.edu	37	4	39409003	39409003	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:39409003G>A	uc003gua.2	+	1	531	c.434G>A	c.(433-435)GGA>GAA	p.G145E	KLB_uc011byj.1_Missense_Mutation_p.G145E	NM_175737	NP_783864	Q86Z14	KLOTB_HUMAN	klotho beta	145	Extracellular (Potential).|Glycosyl hydrolase-1 1.				carbohydrate metabolic process	integral to membrane|plasma membrane	cation binding|fibroblast growth factor binding|hydrolase activity, hydrolyzing O-glycosyl compounds			skin(1)	1						GATTTTATAGGAGTTTCTTTT	0.393													35	83	---	---	---	---	PASS
RHOH	399	broad.mit.edu	37	4	40245121	40245121	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:40245121G>A	uc003guz.2	+	3	839	c.115G>A	c.(115-117)GAG>AAG	p.E39K		NM_004310	NP_004301	Q15669	RHOH_HUMAN	ras homolog gene family, member H precursor	39	Effector region (By similarity).				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			ovary(1)|lung(1)	2						CACAGTGTACGAGAACACAGG	0.607													24	48	---	---	---	---	PASS
APBB2	323	broad.mit.edu	37	4	40832492	40832492	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:40832492C>T	uc003gvl.2	-	13	2259	c.1629G>A	c.(1627-1629)GAG>GAA	p.E543E	APBB2_uc010ifu.2_Silent_p.E115E|APBB2_uc003gvm.2_Silent_p.E522E|APBB2_uc003gvn.2_Silent_p.E544E|APBB2_uc003gvk.2_5'UTR	NM_173075	NP_775098	Q92870	APBB2_HUMAN	amyloid beta A4 precursor protein-binding,	543	PID 1.				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						TGGAGCAGATCTCGTGGAGAC	0.463													13	34	---	---	---	---	PASS
BEND4	389206	broad.mit.edu	37	4	42119665	42119665	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:42119665C>T	uc003gwn.2	-	6	2055	c.1475G>A	c.(1474-1476)GGT>GAT	p.G492D	BEND4_uc003gwm.2_3'UTR	NM_207406	NP_997289	Q6ZU67	BEND4_HUMAN	BEN domain containing 4 isoform a	492	BEN.										0						TCGGGCGTGACCGACAGCGTC	0.522													4	17	---	---	---	---	PASS
GRXCR1	389207	broad.mit.edu	37	4	42895559	42895559	+	Silent	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:42895559T>C	uc003gwt.2	+	1	276	c.276T>C	c.(274-276)TTT>TTC	p.F92F		NM_001080476	NP_001073945	A8MXD5	GRCR1_HUMAN	glutaredoxin, cysteine rich 1	92					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						AGAAGGGTTTTGGTACAAGAA	0.448													37	72	---	---	---	---	PASS
GABRG1	2565	broad.mit.edu	37	4	46066475	46066475	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:46066475G>A	uc003gxb.2	-	5	760	c.608C>T	c.(607-609)CCA>CTA	p.P203L		NM_173536	NP_775807	Q8N1C3	GBRG1_HUMAN	gamma-aminobutyric acid A receptor, gamma 1	203	Extracellular (Probable).				gamma-aminobutyric acid signaling pathway	cell junction|chloride channel complex|postsynaptic membrane	chloride channel activity|extracellular ligand-gated ion channel activity			ovary(2)	2				Lung(65;0.106)|LUSC - Lung squamous cell carcinoma(721;0.23)		AAATTCCAGTGGACAGGAATG	0.269													22	39	---	---	---	---	PASS
GABRA2	2555	broad.mit.edu	37	4	46252353	46252353	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:46252353C>T	uc003gxc.3	-	9	2001	c.1328G>A	c.(1327-1329)AGA>AAA	p.R443K	GABRA2_uc010igc.2_Missense_Mutation_p.R443K|GABRA2_uc011bzc.1_Missense_Mutation_p.R448K	NM_001114175	NP_001107647	P47869	GBRA2_HUMAN	gamma-aminobutyric acid A receptor, alpha 2	443					gamma-aminobutyric acid signaling pathway|neurotransmitter transport|regulation of neurotransmitter levels	cell junction|chloride channel complex|integral to synaptic vesicle membrane|postsynaptic membrane	benzodiazepine receptor activity|chloride channel activity|extracellular ligand-gated ion channel activity|GABA-A receptor activity			ovary(2)|skin(2)	4					Alprazolam(DB00404)|Bromazepam(DB01558)|Diazepam(DB00829)|Ethchlorvynol(DB00189)|Fludiazepam(DB01567)|Flunitrazepam(DB01544)|Flurazepam(DB00690)|Lorazepam(DB00186)|Meprobamate(DB00371)|Midazolam(DB00683)	TACAGGTTCTCTGTTTAAATA	0.348													37	38	---	---	---	---	PASS
ATP10D	57205	broad.mit.edu	37	4	47559988	47559988	+	Missense_Mutation	SNP	C	T	T	rs143517951		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:47559988C>T	uc003gxk.1	+	12	2296	c.2132C>T	c.(2131-2133)TCC>TTC	p.S711F	ATP10D_uc003gxl.1_Intron	NM_020453	NP_065186	Q9P241	AT10D_HUMAN	ATPase, class V, type 10D	711	Cytoplasmic (Potential).				ATP biosynthetic process|cation transport	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(2)|pancreas(1)	3						AAGGCAGAGTCCCTCCCTGGA	0.572													12	35	---	---	---	---	PASS
CORIN	10699	broad.mit.edu	37	4	47682236	47682236	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:47682236C>T	uc003gxm.2	-	8	1147	c.1054G>A	c.(1054-1056)GAC>AAC	p.D352N	CORIN_uc011bzf.1_Missense_Mutation_p.D213N|CORIN_uc011bzg.1_Missense_Mutation_p.D285N|CORIN_uc011bzh.1_Intron|CORIN_uc011bzi.1_Intron|CORIN_uc003gxn.3_3'UTR	NM_006587	NP_006578	Q9Y5Q5	CORIN_HUMAN	corin	352	Extracellular (Potential).|LDL-receptor class A 3.				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						CAGCGCCCGTCCCCGCAGCGA	0.542													4	27	---	---	---	---	PASS
NFXL1	152518	broad.mit.edu	37	4	47913022	47913022	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:47913022G>A	uc010igh.2	-						NFXL1_uc003gxp.2_Intron|NFXL1_uc003gxq.3_Intron|NFXL1_uc010igi.2_Intron	NM_152995	NP_694540	Q6ZNB6	NFXL1_HUMAN	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						CTGTTTAAAAGAAAAAAGTTT	0.318													6	14	---	---	---	---	PASS
CNGA1	1259	broad.mit.edu	37	4	47942791	47942791	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:47942791C>T	uc003gxt.3	-	10	919	c.653G>A	c.(652-654)CGA>CAA	p.R218Q	uc003gxr.1_Intron|CNGA1_uc003gxu.2_Missense_Mutation_p.R287Q	NM_000087	NP_000078	P29973	CNGA1_HUMAN	cyclic nucleotide gated channel alpha 1 isoform	218	Cytoplasmic (Potential).				response to stimulus|visual perception	integral to plasma membrane	cGMP binding|ion channel activity			ovary(2)	2						TGTCCTTGTTCGTACAAACAT	0.294													12	28	---	---	---	---	PASS
TXK	7294	broad.mit.edu	37	4	48073677	48073677	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:48073677C>T	uc003gxx.3	-	14	1458	c.1372G>A	c.(1372-1374)GAA>AAA	p.E458K	TXK_uc010igj.2_RNA|TXK_uc011bzj.1_Missense_Mutation_p.E145K	NM_003328	NP_003319	P42681	TXK_HUMAN	TXK tyrosine kinase	458	Protein kinase.					cytoplasm	ATP binding|non-membrane spanning protein tyrosine kinase activity				0						GTAAAAACTTCCCACATTAAA	0.388													34	93	---	---	---	---	PASS
TXK	7294	broad.mit.edu	37	4	48088613	48088613	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:48088613C>T	uc003gxx.3	-	10	912	c.826G>A	c.(826-828)GAG>AAG	p.E276K		NM_003328	NP_003319	P42681	TXK_HUMAN	TXK tyrosine kinase	276	Protein kinase.					cytoplasm	ATP binding|non-membrane spanning protein tyrosine kinase activity				0						CTTCCAATCTCCTTTATAAAA	0.408													14	37	---	---	---	---	PASS
TEC	7006	broad.mit.edu	37	4	48169961	48169961	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:48169961G>A	uc003gxz.2	-	7	596	c.505C>T	c.(505-507)CCC>TCC	p.P169S		NM_003215	NP_003206	P42680	TEC_HUMAN	tec protein tyrosine kinase	169					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						ATTGGTGGGGGAGGCCTTCGC	0.383													35	48	---	---	---	---	PASS
OCIAD2	132299	broad.mit.edu	37	4	48906512	48906512	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:48906512G>A	uc003gyt.2	-	2	258	c.55C>T	c.(55-57)CCA>TCA	p.P19S	OCIAD2_uc003gyu.2_Missense_Mutation_p.P19S	NM_001014446	NP_001014446	Q56VL3	OCAD2_HUMAN	OCIA domain containing 2 isoform 1	19	OCIA.					endosome					0						TGCTTGCTTGGTGGTGGAAAA	0.299													21	53	---	---	---	---	PASS
CWH43	80157	broad.mit.edu	37	4	49052864	49052864	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:49052864C>T	uc003gyv.2	+	15	2201	c.2019C>T	c.(2017-2019)CCC>CCT	p.P673P	CWH43_uc011bzl.1_Silent_p.P646P	NM_025087	NP_079363	Q9H720	PG2IP_HUMAN	cell wall biogenesis 43 C-terminal homolog	673					GPI anchor biosynthetic process	integral to membrane				skin(2)|ovary(1)	3						ATTTTAATCCCAGGTGAGTTC	0.383													11	27	---	---	---	---	PASS
USP46	64854	broad.mit.edu	37	4	53476783	53476783	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:53476783C>G	uc003gzn.2	-	5	747	c.562G>C	c.(562-564)GTT>CTT	p.V188L	USP46_uc003gzm.3_Missense_Mutation_p.V181L|USP46_uc011bzr.1_Missense_Mutation_p.V165L|USP46_uc011bzs.1_Missense_Mutation_p.V72L	NM_022832	NP_073743	P62068	UBP46_HUMAN	ubiquitin specific peptidase 46 isoform 1	188					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)			TTGCTACTAACCTGAAACAAA	0.343													15	17	---	---	---	---	PASS
LNX1	84708	broad.mit.edu	37	4	54440061	54440061	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:54440061C>T	uc003hag.3	-	2	365	c.109G>A	c.(109-111)GAT>AAT	p.D37N	PDGFRA_uc003haa.2_Intron|LNX1_uc003hah.3_RNA	NM_001126328	NP_001119800	Q8TBB1	LNX1_HUMAN	ligand of numb-protein X 1 isoform a	37						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)			ATGAGGTCATCATCCACTTCC	0.572													10	16	---	---	---	---	PASS
KIT	3815	broad.mit.edu	37	4	55564553	55564553	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:55564553C>T	uc010igr.2	+	3	528	c.441C>T	c.(439-441)TCC>TCT	p.S147S	KIT_uc010igs.2_Silent_p.S147S	NM_000222	NP_000213	P10721	KIT_HUMAN	v-kit Hardy-Zuckerman 4 feline sarcoma viral	147	Extracellular (Potential).|Ig-like C2-type 2.				male gonad development|transmembrane receptor protein tyrosine kinase signaling pathway	extracellular space|integral to membrane	ATP binding|protein binding|receptor signaling protein tyrosine kinase activity			soft_tissue(3273)|haematopoietic_and_lymphoid_tissue(1572)|skin(99)|testis(49)|bone(21)|genital_tract(18)|kidney(17)|ovary(16)|salivary_gland(15)|large_intestine(11)|thymus(6)|lung(6)|central_nervous_system(4)|NS(3)|eye(2)|endometrium(2)|breast(1)|stomach(1)|autonomic_ganglia(1)|pancreas(1)	5118	all_cancers(7;0.00453)|all_lung(4;0.000565)|Lung NSC(11;0.00129)|all_epithelial(27;0.0104)|Glioma(25;0.08)|all_neural(26;0.101)		LUSC - Lung squamous cell carcinoma(32;0.000276)|Epithelial(7;0.209)	Colorectal(1;0.0276)|COAD - Colon adenocarcinoma(1;0.171)	Dasatinib(DB01254)|Imatinib(DB00619)|Sorafenib(DB00398)|Sunitinib(DB01268)	CCAATTATTCCCTCAAGGGGT	0.532		1	Mis|O		GIST|AML|TGCT|mastocytosis|mucosal melanoma	GIST|epithelioma	Piebald trait		Mast_Cell_disease_Familial_Clustering_of|Piebaldism|Gastrointestinal_Stromal_Tumors_Sporadic_Multiple_Primary|Familial_Gastrointestinal_Stromal_Tumors				10	31	---	---	---	---	PASS
KIAA1211	57482	broad.mit.edu	37	4	57180318	57180318	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:57180318C>T	uc003hbk.2	+	8	1041	c.650C>T	c.(649-651)TCC>TTC	p.S217F	KIAA1211_uc010iha.2_Missense_Mutation_p.S210F|KIAA1211_uc011bzz.1_Missense_Mutation_p.S127F|KIAA1211_uc003hbm.1_Missense_Mutation_p.S103F	NM_020722	NP_065773	Q6ZU35	K1211_HUMAN	hypothetical protein LOC57482	217	Glu-rich.									ovary(1)|skin(1)	2	Glioma(25;0.08)|all_neural(26;0.101)					CCGCTGGATTCCGAGGAAGAG	0.607													6	23	---	---	---	---	PASS
REST	5978	broad.mit.edu	37	4	57797662	57797662	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:57797662C>T	uc003hch.2	+	4	2985	c.2638C>T	c.(2638-2640)CAA>TAA	p.Q880*	REST_uc003hci.2_Nonsense_Mutation_p.Q880*|REST_uc010ihf.2_Nonsense_Mutation_p.Q554*	NM_005612	NP_005603	Q13127	REST_HUMAN	RE1-silencing transcription factor	880					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)					ATCAGGAGACCAAAAATTACT	0.448													104	154	---	---	---	---	PASS
LPHN3	23284	broad.mit.edu	37	4	62452935	62452935	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:62452935C>T	uc010ihh.2	+						LPHN3_uc003hcq.3_Intron|LPHN3_uc010ihg.1_Intron	NM_015236	NP_056051	Q9HAR2	LPHN3_HUMAN	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						CTTCCTCTTCCTTTTGGCAGC	0.443													6	12	---	---	---	---	PASS
EPHA5	2044	broad.mit.edu	37	4	66233105	66233105	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:66233105C>T	uc003hcy.2	-	10	2087	c.1894G>A	c.(1894-1896)GAG>AAG	p.E632K	EPHA5_uc003hcx.2_Missense_Mutation_p.E564K|EPHA5_uc003hcz.2_Missense_Mutation_p.E610K|EPHA5_uc011cah.1_Missense_Mutation_p.E633K|EPHA5_uc011cai.1_Missense_Mutation_p.E611K|EPHA5_uc003hda.2_Missense_Mutation_p.E633K	NM_004439	NP_004430	P54756	EPHA5_HUMAN	ephrin receptor EphA5 isoform a precursor	632	Cytoplasmic (Potential).				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						ATCTTTTCCTCTTCTGGATCT	0.358										TSP Lung(17;0.13)			9	21	---	---	---	---	PASS
TMPRSS11D	9407	broad.mit.edu	37	4	68719814	68719814	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:68719814C>T	uc003hdq.2	-	3	286	c.221G>A	c.(220-222)AGG>AAG	p.R74K	LOC550112_uc003hdl.3_Intron|TMPRSS11D_uc011caj.1_5'UTR	NM_004262	NP_004253	O60235	TM11D_HUMAN	transmembrane protease, serine 11D	74	SEA.|Extracellular (Potential).				proteolysis|respiratory gaseous exchange	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						ACTCAAAGTCCTGTATTCCTG	0.284													24	62	---	---	---	---	PASS
TMPRSS11A	339967	broad.mit.edu	37	4	68788546	68788546	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:68788546C>T	uc003hdr.1	-	7	749	c.628G>A	c.(628-630)GAT>AAT	p.D210N	LOC550112_uc003hdl.3_Intron|TMPRSS11A_uc003hds.1_Missense_Mutation_p.D207N	NM_182606	NP_872412	Q6ZMR5	TM11A_HUMAN	transmembrane protease, serine 11A isoform 1	210	Peptidase S1.|Extracellular (Potential).				cell cycle|proteolysis	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			skin(1)	1						TGGATGTTATCATACTGAAGG	0.468													12	23	---	---	---	---	PASS
TMPRSS11F	389208	broad.mit.edu	37	4	68930597	68930597	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:68930597C>T	uc003hdt.1	-	8	870	c.821G>A	c.(820-822)CGA>CAA	p.R274Q	LOC550112_uc003hdl.3_Intron|uc011cak.1_Intron|SYT14L_uc010ihn.2_5'Flank	NM_207407	NP_997290	Q6ZWK6	TM11F_HUMAN	transmembrane protease, serine 11F	274	Peptidase S1.|Extracellular (Potential).				proteolysis	extracellular region|integral to plasma membrane	serine-type endopeptidase activity			ovary(1)	1						CCTCACATTTCGTTTCACTGC	0.343													15	20	---	---	---	---	PASS
UGT2B15	7366	broad.mit.edu	37	4	69533906	69533906	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:69533906C>T	uc011cal.1	-	2	763	c.725G>A	c.(724-726)GGA>GAA	p.G242E		NM_001076	NP_001067	P54855	UDB15_HUMAN	UDP glycosyltransferase 2B15 precursor	242					steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity				0						AGTGGGTCTTCCTGATGGAAA	0.368													39	63	---	---	---	---	PASS
UGT2A3	79799	broad.mit.edu	37	4	69817217	69817217	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:69817217C>T	uc003hef.2	-	1	293	c.262G>A	c.(262-264)GAA>AAA	p.E88K	UGT2A3_uc010ihp.1_RNA	NM_024743	NP_079019	Q6UWM9	UD2A3_HUMAN	UDP glucuronosyltransferase 2 family,	88	Extracellular (Potential).					integral to membrane	glucuronosyltransferase activity			ovary(1)|skin(1)	2						ACAAATATTTCATTTTCTTCT	0.363													19	55	---	---	---	---	PASS
UGT2B4	7363	broad.mit.edu	37	4	70361096	70361096	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:70361096C>T	uc003hek.3	-	1	531	c.484G>A	c.(484-486)GAG>AAG	p.E162K	UGT2B4_uc011cap.1_Missense_Mutation_p.E26K|UGT2B4_uc003hel.3_Missense_Mutation_p.E162K	NM_021139	NP_066962	P06133	UD2B4_HUMAN	UDP glucuronosyltransferase 2B4 precursor	162					estrogen catabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|integral to membrane|microsome	glucuronosyltransferase activity			skin(2)	2						TTAAGTAACTCGGCCAGCAGC	0.438													14	33	---	---	---	---	PASS
UGT2A1	10941	broad.mit.edu	37	4	70513040	70513040	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:70513040T>A	uc003hem.3	-	1	386	c.323A>T	c.(322-324)TAT>TTT	p.Y108F	UGT2A1_uc011caq.1_Missense_Mutation_p.Y108F|UGT2A1_uc010ihu.2_Missense_Mutation_p.Y108F|UGT2A1_uc010iht.2_Missense_Mutation_p.Y108F	NM_006798	NP_006789	Q9Y4X1	UD2A1_HUMAN	UDP glucuronosyltransferase 2 family,	108	Extracellular (Potential).				detection of chemical stimulus|sensory perception of smell	integral to membrane	glucuronosyltransferase activity|glucuronosyltransferase activity			ovary(1)	1						CATCTCCTGATAGAATCTCCA	0.423													16	51	---	---	---	---	PASS
SULT1E1	6783	broad.mit.edu	37	4	70710047	70710047	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:70710047C>T	uc003heo.2	-	7	717	c.604G>A	c.(604-606)GAG>AAG	p.E202K		NM_005420	NP_005411	P49888	ST1E1_HUMAN	estrogen sulfotransferase	202	PAPS.				3'-phosphoadenosine 5'-phosphosulfate metabolic process|sulfation|xenobiotic metabolic process	cytosol|nuclear membrane	estrone sulfotransferase activity|flavonol 3-sulfotransferase activity|steroid binding|steroid sulfotransferase activity			ovary(1)	1						TTTATCACCTCTTTTCTGATA	0.338													15	42	---	---	---	---	PASS
CSN1S1	1446	broad.mit.edu	37	4	70804887	70804887	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:70804887C>T	uc003hep.1	+						CSN1S1_uc003heq.1_Intron|CSN1S1_uc003her.1_Intron	NM_001890	NP_001881	P47710	CASA1_HUMAN	casein alpha s1 isoform 1							extracellular region	protein binding|transporter activity				0						AGATTTCTTTCTTTTAGAAGA	0.308													18	61	---	---	---	---	PASS
CSN2	1447	broad.mit.edu	37	4	70826673	70826673	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:70826673A>G	uc003hes.3	-	1	54	c.41T>C	c.(40-42)CTT>CCT	p.L14P	CSN2_uc003het.3_Missense_Mutation_p.L14P	NM_001891	NP_001882	P05814	CASB_HUMAN	casein beta precursor	14					calcium ion transport	extracellular region	calcium ion binding|enzyme inhibitor activity|transporter activity				0						CTCCCTTGCAAGAGCAAGAGC	0.388													9	42	---	---	---	---	PASS
C4orf35	85438	broad.mit.edu	37	4	71201725	71201725	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:71201725C>T	uc003hff.2	+	1	1055	c.969C>T	c.(967-969)TTC>TTT	p.F323F		NM_033122	NP_149113	Q96KC9	CABS1_HUMAN	testis development protein NYD-SP26	323						flagellum	calcium ion binding				0		all_hematologic(202;0.196)				GATATGACTTCGTTGTCCCTG	0.413													28	48	---	---	---	---	PASS
SMR3B	10879	broad.mit.edu	37	4	71255408	71255408	+	Missense_Mutation	SNP	G	A	A	rs149721413		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:71255408G>A	uc011cas.1	+	3	164	c.83G>A	c.(82-84)GGA>GAA	p.G28E	SMR3B_uc003hfh.2_Missense_Mutation_p.G28E	NM_006685	NP_006676	P02814	SMR3B_HUMAN	submaxillary gland androgen regulated protein 3	28	Pro-rich.					extracellular space				skin(1)	1		all_hematologic(202;0.196)				GGCCCCAGGGGACCATATCCA	0.478													16	38	---	---	---	---	PASS
AMTN	401138	broad.mit.edu	37	4	71397027	71397027	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:71397027C>T	uc003hfk.1	+						AMTN_uc010ihy.1_Intron	NM_212557	NP_997722	Q6UX39	AMTN_HUMAN	amelotin precursor						biomineral tissue development|cell adhesion|odontogenesis of dentine-containing tooth	basal lamina|cell-cell junction				large_intestine(1)|central_nervous_system(1)	2			Lung(101;0.235)			GGTAAATTCTCCTAGCTTGGA	0.458													11	28	---	---	---	---	PASS
ENAM	10117	broad.mit.edu	37	4	71510361	71510361	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:71510361C>T	uc011caw.1	+	9	3499	c.3218C>T	c.(3217-3219)CCA>CTA	p.P1073L		NM_031889	NP_114095	Q9NRM1	ENAM_HUMAN	enamelin precursor	1073					bone mineralization|odontogenesis	proteinaceous extracellular matrix	structural constituent of tooth enamel			ovary(3)	3			Lung(101;0.235)			ACCGGAACTCCATCTAGCGAT	0.438													28	76	---	---	---	---	PASS
IGJ	3512	broad.mit.edu	37	4	71527909	71527909	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:71527909G>A	uc003hfn.3	-	2	229	c.88C>T	c.(88-90)CTT>TTT	p.L30F	IGJ_uc010ihz.2_Missense_Mutation_p.L46F	NM_144646	NP_653247	P01591	IGJ_HUMAN	immunoglobulin J chain	30					immune response	extracellular region	antigen binding				0			Lung(101;0.235)			TTGTCAACAAGAACAATCCTT	0.343													23	37	---	---	---	---	PASS
RUFY3	22902	broad.mit.edu	37	4	71672244	71672244	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:71672244G>A	uc003hfr.2	+	18	2326	c.1731G>A	c.(1729-1731)AAG>AAA	p.K577K	RUFY3_uc011cay.1_Silent_p.K513K	NM_001037442	NP_001032519	Q7L099	RUFY3_HUMAN	RUN and FYVE domain containing 3 isoform 1	Error:Variant_position_missing_in_Q7L099_after_alignment					negative regulation of axonogenesis	filopodium|growth cone					0		all_hematologic(202;0.248)	Lung(101;0.235)			ATGTGTGTAAGAACTGCAGCG	0.443													38	95	---	---	---	---	PASS
NPFFR2	10886	broad.mit.edu	37	4	73013255	73013255	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:73013255C>T	uc003hgg.2	+	4	1393	c.1295C>T	c.(1294-1296)CCC>CTC	p.P432L	NPFFR2_uc010iig.1_Missense_Mutation_p.P214L|NPFFR2_uc003hgi.2_Missense_Mutation_p.P333L|NPFFR2_uc003hgh.2_Missense_Mutation_p.P330L|NPFFR2_uc003hgj.2_RNA	NM_004885	NP_004876	Q9Y5X5	NPFF2_HUMAN	neuropeptide FF receptor 2 isoform 1	432	Helical; Name=7; (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)			AGTGTCAATCCCATCATTTAT	0.458													27	41	---	---	---	---	PASS
ADAMTS3	9508	broad.mit.edu	37	4	73169723	73169723	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:73169723C>T	uc003hgk.1	-	17	2372	c.2335G>A	c.(2335-2337)GAT>AAT	p.D779N	ADAMTS3_uc003hgl.2_Missense_Mutation_p.D120N	NM_014243	NP_055058	O15072	ATS3_HUMAN	ADAM metallopeptidase with thrombospondin type 1	779	Spacer.				collagen catabolic process|collagen fibril organization|proteolysis	proteinaceous extracellular matrix	heparin binding|metalloendopeptidase activity|zinc ion binding			ovary(1)|lung(1)	2			Epithelial(6;4.97e-05)|OV - Ovarian serous cystadenocarcinoma(6;5.66e-05)|all cancers(17;0.000486)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)			ACACCAAGATCTATGAAGGTC	0.413													66	157	---	---	---	---	PASS
ALB	213	broad.mit.edu	37	4	74270067	74270067	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:74270067C>T	uc003hgs.3	+	1	96	c.23C>T	c.(22-24)TCC>TTC	p.S8F	ALB_uc003hgw.3_Missense_Mutation_p.S8F|ALB_uc011cbe.1_5'UTR|ALB_uc003hgt.3_Missense_Mutation_p.S8F|ALB_uc010iii.2_Missense_Mutation_p.S8F|ALB_uc003hgu.3_5'UTR|ALB_uc003hgv.3_5'UTR|ALB_uc011cbf.1_5'Flank	NM_000477	NP_000468	P02768	ALBU_HUMAN	albumin preproprotein	8					bile acid and bile salt transport|bile acid metabolic process|cellular response to starvation|hemolysis by symbiont of host erythrocytes|lipoprotein metabolic process|maintenance of mitochondrion location|negative regulation of apoptosis|platelet activation|platelet degranulation|sodium-independent organic anion transport|transmembrane transport	extracellular space|platelet alpha granule lumen|protein complex	antioxidant activity|chaperone binding|copper ion binding|DNA binding|drug binding|fatty acid binding|pyridoxal phosphate binding|toxin binding			ovary(3)|skin(3)	6	Breast(15;0.00102)		Epithelial(6;4.8e-05)|OV - Ovarian serous cystadenocarcinoma(6;0.000263)|all cancers(17;0.000472)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)		Acenocoumarol(DB01418)|Acitretin(DB00459)|Alfentanil(DB00802)|Aluminium(DB01370)|Auranofin(DB00995)|Bismuth(DB01402)|Captopril(DB01197)|Carboplatin(DB00958)|Cefalotin(DB00456)|Cefazolin(DB01327)|Cefonicid(DB01328)|Cefoperazone(DB01329)|Chlorpheniramine(DB01114)|Chlorpromazine(DB00477)|Ciprofloxacin(DB00537)|Clonazepam(DB01068)|Cloxacillin(DB01147)|Cytarabine(DB00987)|Dantrolene(DB01219)|Diclofenac(DB00586)|Diflunisal(DB00861)|Digitoxin(DB01396)|Estrone(DB00655)|Ethacrynic acid(DB00903)|Etodolac(DB00749)|Flurbiprofen(DB00712)|Gadobenate Dimeglumine(DB00743)|Gatifloxacin(DB01044)|Gliclazide(DB01120)|Halothane(DB01159)|Human Serum Albumin(DB00062)|Hyaluronidase(DB00070)|Ibuprofen(DB01050)|Insulin-detemir(DB01307)|Insulin-glargine(DB01308)|Iodipamide(DB04711)|Ketoprofen(DB01009)|Levamisole(DB00848)|Levothyroxine(DB00451)|Liothyronine(DB00279)|Mefenamic acid(DB00784)|Mephenytoin(DB00532)|Methotrexate(DB00563)|Nortriptyline(DB00540)|Oxazepam(DB00842)|Paclitaxel(DB01229)|Phenprocoumon(DB00946)|Probenecid(DB01032)|Propofol(DB00818)|Pyridoxine(DB00165)|Salicyclic acid(DB00936)|Saquinavir(DB01232)|Serum albumin(DB00096)|Serum albumin iodonated(DB00064)|Sodium lauryl sulfate(DB00815)|Sucralfate(DB00364)|Sulfamethizole(DB00576)|Sulindac(DB00605)|Suprofen(DB00870)|Testosterone(DB00624)|Xanthophyll(DB00137)	ACCTTTATTTCCCTTCTTTTT	0.393													23	31	---	---	---	---	PASS
ALB	213	broad.mit.edu	37	4	74283961	74283961	+	Missense_Mutation	SNP	G	A	A	rs74826639		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:74283961G>A	uc003hgs.3	+	12	1658	c.1585G>A	c.(1585-1587)GAA>AAA	p.E529K	ALB_uc003hgw.3_Missense_Mutation_p.E337K|ALB_uc011cbe.1_Missense_Mutation_p.E208K|ALB_uc003hgt.3_Missense_Mutation_p.E529K|ALB_uc010iii.2_Missense_Mutation_p.E414K|ALB_uc003hgu.3_Missense_Mutation_p.E379K|ALB_uc003hgv.3_Missense_Mutation_p.E208K|ALB_uc011cbf.1_Missense_Mutation_p.E419K|ALB_uc010iij.2_RNA|ALB_uc003hgx.3_Missense_Mutation_p.E208K	NM_000477	NP_000468	P02768	ALBU_HUMAN	albumin preproprotein	529	Albumin 3.		E -> K (in Ortonovo).		bile acid and bile salt transport|bile acid metabolic process|cellular response to starvation|hemolysis by symbiont of host erythrocytes|lipoprotein metabolic process|maintenance of mitochondrion location|negative regulation of apoptosis|platelet activation|platelet degranulation|sodium-independent organic anion transport|transmembrane transport	extracellular space|platelet alpha granule lumen|protein complex	antioxidant activity|chaperone binding|copper ion binding|DNA binding|drug binding|fatty acid binding|pyridoxal phosphate binding|toxin binding			ovary(3)|skin(3)	6	Breast(15;0.00102)		Epithelial(6;4.8e-05)|OV - Ovarian serous cystadenocarcinoma(6;0.000263)|all cancers(17;0.000472)|Lung(101;0.103)|LUSC - Lung squamous cell carcinoma(112;0.154)		Acenocoumarol(DB01418)|Acitretin(DB00459)|Alfentanil(DB00802)|Aluminium(DB01370)|Auranofin(DB00995)|Bismuth(DB01402)|Captopril(DB01197)|Carboplatin(DB00958)|Cefalotin(DB00456)|Cefazolin(DB01327)|Cefonicid(DB01328)|Cefoperazone(DB01329)|Chlorpheniramine(DB01114)|Chlorpromazine(DB00477)|Ciprofloxacin(DB00537)|Clonazepam(DB01068)|Cloxacillin(DB01147)|Cytarabine(DB00987)|Dantrolene(DB01219)|Diclofenac(DB00586)|Diflunisal(DB00861)|Digitoxin(DB01396)|Estrone(DB00655)|Ethacrynic acid(DB00903)|Etodolac(DB00749)|Flurbiprofen(DB00712)|Gadobenate Dimeglumine(DB00743)|Gatifloxacin(DB01044)|Gliclazide(DB01120)|Halothane(DB01159)|Human Serum Albumin(DB00062)|Hyaluronidase(DB00070)|Ibuprofen(DB01050)|Insulin-detemir(DB01307)|Insulin-glargine(DB01308)|Iodipamide(DB04711)|Ketoprofen(DB01009)|Levamisole(DB00848)|Levothyroxine(DB00451)|Liothyronine(DB00279)|Mefenamic acid(DB00784)|Mephenytoin(DB00532)|Methotrexate(DB00563)|Nortriptyline(DB00540)|Oxazepam(DB00842)|Paclitaxel(DB01229)|Phenprocoumon(DB00946)|Probenecid(DB01032)|Propofol(DB00818)|Pyridoxine(DB00165)|Salicyclic acid(DB00936)|Saquinavir(DB01232)|Serum albumin(DB00096)|Serum albumin iodonated(DB00064)|Sodium lauryl sulfate(DB00815)|Sucralfate(DB00364)|Sulfamethizole(DB00576)|Sulindac(DB00605)|Suprofen(DB00870)|Testosterone(DB00624)|Xanthophyll(DB00137)	GTTTAATGCTGAAACATTCAC	0.418													19	53	---	---	---	---	PASS
AFP	174	broad.mit.edu	37	4	74310704	74310704	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:74310704C>T	uc003hgz.1	+						AFP_uc003hha.1_Intron|AFP_uc011cbg.1_Intron	NM_001134	NP_001125	P02771	FETA_HUMAN	alpha-fetoprotein precursor						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)			TCTTTTTTTTCCCTAGAACTG	0.308									Alpha-Fetoprotein_Hereditary_Persistence_of				7	21	---	---	---	---	PASS
IL8	3576	broad.mit.edu	37	4	74607250	74607250	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:74607250C>T	uc003hhe.2	+						IL8_uc011cbh.1_Intron	NM_000584	NP_000575	P10145	IL8_HUMAN	interleukin 8 precursor						angiogenesis|calcium-mediated signaling|cell cycle arrest|cellular response to lipopolysaccharide|embryonic digestive tract development|G-protein coupled receptor protein signaling pathway|immune response|induction of positive chemotaxis|inflammatory response|negative regulation of cell proliferation|neutrophil activation|neutrophil chemotaxis|positive regulation of neutrophil chemotaxis|regulation of cell adhesion|regulation of retroviral genome replication	extracellular space|intracellular	chemokine activity|interleukin-8 receptor binding			ovary(2)	2	Breast(15;0.00102)		all cancers(17;0.00169)|Lung(101;0.128)|LUSC - Lung squamous cell carcinoma(112;0.187)	LUSC - Lung squamous cell carcinoma(721;0.008)	Ketoprofen(DB01009)|Salbutamol(DB01001)|Simvastatin(DB00641)|Zileuton(DB00744)	TCACTTTTTCCCCCAACAGGT	0.398													8	13	---	---	---	---	PASS
CXCL5	6374	broad.mit.edu	37	4	74863790	74863790	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:74863790C>T	uc003hhk.2	-	3	383	c.265G>A	c.(265-267)GAA>AAA	p.E89K		NM_002994	NP_002985	P42830	CXCL5_HUMAN	chemokine (C-X-C motif) ligand 5 precursor	89					cell-cell signaling|chemotaxis|immune response|positive regulation of cell proliferation|signal transduction	extracellular space	chemokine activity				0	Breast(15;0.00136)		all cancers(17;0.00273)|Lung(101;0.196)			AGACAAATTTCCTTCCCGTTC	0.423													37	85	---	---	---	---	PASS
PARM1	25849	broad.mit.edu	37	4	75937898	75937898	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:75937898G>A	uc003hih.1	+	2	547	c.307G>A	c.(307-309)GAC>AAC	p.D103N		NM_015393	NP_056208	Q6UWI2	PARM1_HUMAN	prostatic androgen-repressed message-1	103	Extracellular (Potential).				positive regulation of telomerase activity	early endosome|endosome membrane|Golgi membrane|integral to membrane|late endosome|plasma membrane				ovary(1)	1						CACAAACACAGACCCCTCACC	0.542													78	87	---	---	---	---	PASS
CDKL2	8999	broad.mit.edu	37	4	76551160	76551160	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:76551160C>T	uc003hiq.2	-	2	538	c.13G>A	c.(13-15)GAA>AAA	p.E5K	CDKL2_uc011cbp.1_Missense_Mutation_p.E5K|CDKL2_uc010iix.1_RNA	NM_003948	NP_003939	Q92772	CDKL2_HUMAN	cyclin-dependent kinase-like 2	5	Protein kinase.				sex differentiation|signal transduction	cytoplasm|nucleus	ATP binding|cyclin-dependent protein kinase activity			ovary(2)|stomach(2)|breast(2)|skin(1)	7			Lung(101;0.0973)|LUSC - Lung squamous cell carcinoma(112;0.122)			CCCAGGTTTTCATATTTTTCC	0.353													23	41	---	---	---	---	PASS
CXCL10	3627	broad.mit.edu	37	4	76943560	76943560	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:76943560C>T	uc003hjl.3	-	3	307	c.237G>A	c.(235-237)TCG>TCA	p.S79S	ART3_uc003hji.2_Intron|ART3_uc003hjj.2_Intron|ART3_uc003hjk.2_Intron	NM_001565	NP_001556	P02778	CXL10_HUMAN	small inducible cytokine B10 precursor	79					blood circulation|cell surface receptor linked signaling pathway|cell-cell signaling|chemotaxis|inflammatory response|muscle organ development|positive regulation of cell proliferation	extracellular space	cAMP-dependent protein kinase regulator activity|chemokine activity				0			Lung(101;0.0809)|LUSC - Lung squamous cell carcinoma(112;0.0934)			TGATGGCCTTCGATTCTGGAT	0.388													23	52	---	---	---	---	PASS
ART3	419	broad.mit.edu	37	4	77003049	77003049	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:77003049G>A	uc003hjo.2	+	3	261	c.142G>A	c.(142-144)GAA>AAA	p.E48K	ART3_uc003hji.2_Missense_Mutation_p.E48K|ART3_uc003hjj.2_Missense_Mutation_p.E48K|ART3_uc003hjk.2_Missense_Mutation_p.E48K|ART3_uc010ija.1_Missense_Mutation_p.E48K|ART3_uc003hjn.2_Missense_Mutation_p.E48K|ART3_uc003hjp.2_Intron|ART3_uc010ijb.2_Intron|ART3_uc003hjq.2_Intron|ART3_uc003hjr.2_Missense_Mutation_p.E18K|ART3_uc010ijc.2_Missense_Mutation_p.E18K|ART3_uc010ijd.2_Missense_Mutation_p.E18K	NM_001130016	NP_001123488	Q13508	NAR3_HUMAN	ADP-ribosyltransferase 3 isoform a	48					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)			GGACAGGATGGAAATTAAATA	0.403													31	77	---	---	---	---	PASS
CCDC158	339965	broad.mit.edu	37	4	77278671	77278671	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:77278671C>T	uc003hkb.3	-	13	2182	c.2029G>A	c.(2029-2031)GAA>AAA	p.E677K		NM_001042784	NP_001036249	Q5M9N0	CD158_HUMAN	coiled-coil domain containing 158	677	Potential.									skin(3)|ovary(2)|pancreas(1)	6						TTTAAGACTTCATACTCCTCT	0.254													7	11	---	---	---	---	PASS
ANXA3	306	broad.mit.edu	37	4	79507409	79507409	+	Intron	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:79507409T>A	uc003hld.2	+						ANXA3_uc003hle.2_Intron|ANXA3_uc010ijk.2_Intron	NM_005139	NP_005130	P12429	ANXA3_HUMAN	annexin A3						defense response to bacterium|neutrophil degranulation|phagocytosis|positive regulation of angiogenesis|positive regulation of endothelial cell migration|positive regulation of sequence-specific DNA binding transcription factor activity	phagocytic vesicle membrane|plasma membrane|specific granule	calcium ion binding|calcium-dependent phospholipid binding|phospholipase A2 inhibitor activity				0						TCTTTTCCTTTTTAGGGCGCG	0.343													20	39	---	---	---	---	PASS
GK2	2712	broad.mit.edu	37	4	80328210	80328210	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:80328210C>T	uc003hlu.2	-	1	1163	c.1145G>A	c.(1144-1146)GGC>GAC	p.G382D		NM_033214	NP_149991	Q14410	GLPK2_HUMAN	glycerol kinase 2	382					glycerol-3-phosphate metabolic process	mitochondrial outer membrane	ATP binding|glycerol kinase activity			ovary(2)|skin(2)	4						CTGAGTGAGGCCACAGAGTAT	0.438													30	79	---	---	---	---	PASS
PRKG2	5593	broad.mit.edu	37	4	82095970	82095970	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:82095970C>T	uc003hmh.2	-	2	619	c.605G>A	c.(604-606)GGA>GAA	p.G202E	PRKG2_uc011cch.1_Missense_Mutation_p.G202E	NM_006259	NP_006250	Q13237	KGP2_HUMAN	protein kinase, cGMP-dependent, type II	202	cGMP 1.				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						GATATGGTTTCCTGGTTCTCC	0.368													31	65	---	---	---	---	PASS
SCD5	79966	broad.mit.edu	37	4	83626521	83626521	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:83626521G>A	uc003hna.2	-	2	598	c.278C>T	c.(277-279)GCC>GTC	p.A93V	SCD5_uc003hnb.3_Missense_Mutation_p.A93V|SCD5_uc003hnc.2_Missense_Mutation_p.A93V	NM_001037582	NP_001032671	Q86SK9	SCD5_HUMAN	stearoyl-CoA desaturase 5 isoform a	93	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)				CAAGCGATGGGCACCAGCTGT	0.577													10	24	---	---	---	---	PASS
COPS4	51138	broad.mit.edu	37	4	83956462	83956462	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:83956462C>T	uc003hoa.2	+						COPS4_uc003hob.2_Intron|COPS4_uc010ijw.2_Intron|COPS4_uc010ijx.2_Intron	NM_016129	NP_057213	Q9BT78	CSN4_HUMAN	COP9 signalosome subunit 4						cullin deneddylation	cytoplasm|signalosome	protein binding			kidney(1)	1		Hepatocellular(203;0.114)				GTGAGTATTTCCCAGGAACGC	0.572													3	10	---	---	---	---	PASS
COPS4	51138	broad.mit.edu	37	4	83956463	83956463	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:83956463C>T	uc003hoa.2	+						COPS4_uc003hob.2_Intron|COPS4_uc010ijw.2_Intron|COPS4_uc010ijx.2_Intron	NM_016129	NP_057213	Q9BT78	CSN4_HUMAN	COP9 signalosome subunit 4						cullin deneddylation	cytoplasm|signalosome	protein binding			kidney(1)	1		Hepatocellular(203;0.114)				TGAGTATTTCCCAGGAACGCG	0.572													3	10	---	---	---	---	PASS
HELQ	113510	broad.mit.edu	37	4	84374945	84374945	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:84374945C>T	uc003hom.2	-	2	630	c.451G>A	c.(451-453)GAA>AAA	p.E151K	HELQ_uc010ikb.2_Missense_Mutation_p.E151K|HELQ_uc003hol.3_RNA|HELQ_uc010ikc.2_RNA|HELQ_uc003hon.1_Missense_Mutation_p.E45K|HELQ_uc003hoo.1_Missense_Mutation_p.E114K|HELQ_uc003hop.1_Missense_Mutation_p.E45K|HELQ_uc003hoq.1_Missense_Mutation_p.E151K|MRPS18C_uc003hor.3_5'Flank|MRPS18C_uc011ccu.1_5'Flank	NM_133636	NP_598375	Q8TDG4	HELQ_HUMAN	DNA helicase HEL308	151							ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|breast(1)|skin(1)	3						TTGATACTTTCCGAGCAAAGA	0.393								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					45	115	---	---	---	---	PASS
HELQ	113510	broad.mit.edu	37	4	84374946	84374946	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:84374946C>T	uc003hom.2	-	2	629	c.450G>A	c.(448-450)TCG>TCA	p.S150S	HELQ_uc010ikb.2_Silent_p.S150S|HELQ_uc003hol.3_RNA|HELQ_uc010ikc.2_RNA|HELQ_uc003hon.1_Silent_p.S44S|HELQ_uc003hoo.1_Silent_p.S113S|HELQ_uc003hop.1_Silent_p.S44S|HELQ_uc003hoq.1_Silent_p.S150S|MRPS18C_uc003hor.3_5'Flank|MRPS18C_uc011ccu.1_5'Flank	NM_133636	NP_598375	Q8TDG4	HELQ_HUMAN	DNA helicase HEL308	150							ATP binding|ATP-dependent helicase activity|nucleic acid binding			ovary(1)|breast(1)|skin(1)	3						TGATACTTTCCGAGCAAAGAT	0.388								Direct_reversal_of_damage|Other_identified_genes_with_known_or_suspected_DNA_repair_function					46	116	---	---	---	---	PASS
NKX6-1	4825	broad.mit.edu	37	4	85416988	85416988	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:85416988G>A	uc003hpa.1	-	2	686	c.680C>T	c.(679-681)TCC>TTC	p.S227F		NM_006168	NP_006159	P78426	NKX61_HUMAN	NK6 transcription factor related, locus 1	227	Repressor domain (By similarity).				detection of glucose|negative regulation of transcription from RNA polymerase II promoter|organ morphogenesis|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|positive regulation of type B pancreatic cell development|type B pancreatic cell maturation	nucleus					0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.0013)		CAACAAAATGGATCCTTGATC	0.448													26	31	---	---	---	---	PASS
ARHGAP24	83478	broad.mit.edu	37	4	86852138	86852138	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:86852138C>T	uc003hpk.2	+						ARHGAP24_uc003hpj.2_Intron|ARHGAP24_uc003hpl.2_Intron|ARHGAP24_uc010ikf.2_Intron|ARHGAP24_uc003hpm.2_Missense_Mutation_p.P19S	NM_001025616	NP_001020787	Q8N264	RHG24_HUMAN	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)		AGCCTCAACTCCTTTCATCCC	0.423													19	48	---	---	---	---	PASS
PTPN13	5783	broad.mit.edu	37	4	87610231	87610231	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:87610231C>T	uc003hpz.2	+	5	914	c.434C>T	c.(433-435)TCT>TTT	p.S145F	PTPN13_uc003hpy.2_Missense_Mutation_p.S145F|PTPN13_uc003hqa.2_Missense_Mutation_p.S145F|PTPN13_uc003hqb.2_Missense_Mutation_p.S145F	NM_080683	NP_542414	Q12923	PTN13_HUMAN	protein tyrosine phosphatase, non-receptor type	145	KIND.					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)		GCTCGAGTTTCTGTTCGGACT	0.428													38	59	---	---	---	---	PASS
AFF1	4299	broad.mit.edu	37	4	88056849	88056849	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:88056849C>T	uc003hqj.3	+	20	4036	c.3629C>T	c.(3628-3630)CCT>CTT	p.P1210L	AFF1_uc011ccz.1_Missense_Mutation_p.P1218L|AFF1_uc003hqk.3_Missense_Mutation_p.P1211L|AFF1_uc011cda.1_Missense_Mutation_p.P849L	NM_005935	NP_005926	P51825	AFF1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1210						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)		ACCAAAACACCTTAATGGAGC	0.453													7	11	---	---	---	---	PASS
KLHL8	57563	broad.mit.edu	37	4	88106539	88106539	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:88106539G>T	uc011cdb.1	-	3	1014	c.629C>A	c.(628-630)CCG>CAG	p.P210Q	KLHL8_uc003hql.1_Missense_Mutation_p.P210Q|KLHL8_uc003hqm.1_Missense_Mutation_p.P134Q|KLHL8_uc003hqn.1_Intron|KLHL8_uc010ikj.1_Intron	NM_020803	NP_065854	Q9P2G9	KLHL8_HUMAN	kelch-like 8	210											0		Hepatocellular(203;0.114)|all_hematologic(202;0.21)|Acute lymphoblastic leukemia(40;0.242)		OV - Ovarian serous cystadenocarcinoma(123;0.000603)		GAGGTGCTGCGGTGATACACT	0.423													4	108	---	---	---	---	PASS
DSPP	1834	broad.mit.edu	37	4	88532087	88532087	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:88532087T>G	uc003hqu.2	+	2	147	c.27T>G	c.(25-27)ATT>ATG	p.I9M		NM_014208	NP_055023	Q9NZW4	DSPP_HUMAN	dentin sialophosphoprotein preproprotein	9					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)		ATTTTTGCATTTGGGCAGTAG	0.284													20	37	---	---	---	---	PASS
IBSP	3381	broad.mit.edu	37	4	88732595	88732595	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:88732595G>A	uc003hqx.3	+	7	585	c.487G>A	c.(487-489)GAA>AAA	p.E163K		NM_004967	NP_004958	P21815	SIAL_HUMAN	integrin-binding sialoprotein precursor	163	Asp/Glu-rich (acidic).				biomineral tissue development|cell adhesion|ossification						0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000333)|COAD - Colon adenocarcinoma(81;0.154)		aaatgaaaacgaagaaagcga	0.333													25	34	---	---	---	---	PASS
IBSP	3381	broad.mit.edu	37	4	88732970	88732970	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:88732970G>A	uc003hqx.3	+	7	960	c.862G>A	c.(862-864)GAC>AAC	p.D288N		NM_004967	NP_004958	P21815	SIAL_HUMAN	integrin-binding sialoprotein precursor	288	Cell attachment site.				biomineral tissue development|cell adhesion|ossification						0		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000333)|COAD - Colon adenocarcinoma(81;0.154)		ACCTCGTGGGGACAATTACCG	0.478													30	59	---	---	---	---	PASS
SPP1	6696	broad.mit.edu	37	4	88902860	88902860	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:88902860C>T	uc003hra.2	+	6	615	c.450C>T	c.(448-450)GTC>GTT	p.V150V	SPP1_uc003hrb.2_Silent_p.V123V|SPP1_uc003hrc.2_Silent_p.V136V|SPP1_uc011cde.1_Silent_p.V163V|SPP1_uc003hrd.2_Silent_p.V109V	NM_001040058	NP_001035147	P10451	OSTP_HUMAN	secreted phosphoprotein 1 isoform a	150					biomineral tissue development|cell adhesion|decidualization|embryo implantation|ossification|response to vitamin D	extracellular space	cytokine activity			ovary(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;9.87e-05)		CTCCAGTTGTCCCCACAGTAG	0.468													36	85	---	---	---	---	PASS
PKD2	5311	broad.mit.edu	37	4	88957445	88957445	+	Silent	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:88957445C>A	uc003hre.2	+	3	849	c.783C>A	c.(781-783)CCC>CCA	p.P261P		NM_000297	NP_000288	Q13563	PKD2_HUMAN	polycystin 2	261	Extracellular (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)		TAGACACCCCCGTGTCCAAAA	0.433													4	78	---	---	---	---	PASS
HERC5	51191	broad.mit.edu	37	4	89383489	89383489	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:89383489G>A	uc003hrt.2	+	4	823	c.670G>A	c.(670-672)GGC>AGC	p.G224S		NM_016323	NP_057407	Q9UII4	HERC5_HUMAN	hect domain and RLD 5	224	RCC1 3.				innate immune response|ISG15-protein conjugation|negative regulation of type I interferon production|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|regulation of cyclin-dependent protein kinase activity|regulation of defense response to virus|response to virus	cytosol|perinuclear region of cytoplasm	ISG15 ligase activity|protein binding|ubiquitin-protein ligase activity			ovary(4)|lung(3)|skin(2)	9		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;0.000209)		TGGACAACTAGGCCTGGGCCA	0.438													13	35	---	---	---	---	PASS
HERC3	8916	broad.mit.edu	37	4	89591352	89591352	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:89591352C>T	uc003hrw.1	+	16	2026	c.1860C>T	c.(1858-1860)CTC>CTT	p.L620L	HERC3_uc011cdn.1_Silent_p.L502L|HERC3_uc011cdo.1_Silent_p.L64L	NM_014606	NP_055421	Q15034	HERC3_HUMAN	hect domain and RLD 3	620					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)		TTTCCAATCTCGTGGACATTC	0.338													23	55	---	---	---	---	PASS
HERC3	8916	broad.mit.edu	37	4	89627996	89627996	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:89627996C>T	uc003hrw.1	+	26	3204	c.3038C>T	c.(3037-3039)CCG>CTG	p.P1013L	HERC3_uc011cdn.1_Missense_Mutation_p.P895L|HERC3_uc011cdo.1_Missense_Mutation_p.P457L|FAM13AOS_uc003hry.1_5'Flank	NM_014606	NP_055421	Q15034	HERC3_HUMAN	hect domain and RLD 3	1013	HECT.				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)		GAGTACTTGCCGGTGGCCCAC	0.577											OREG0016265	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	15	46	---	---	---	---	PASS
MMRN1	22915	broad.mit.edu	37	4	90857133	90857133	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:90857133G>A	uc003hst.2	+	6	2373	c.2302G>A	c.(2302-2304)GAT>AAT	p.D768N	MMRN1_uc010iku.2_Intron|MMRN1_uc011cds.1_Missense_Mutation_p.D510N	NM_007351	NP_031377	Q13201	MMRN1_HUMAN	multimerin 1	768					cell adhesion|platelet activation|platelet degranulation	extracellular region|platelet alpha granule lumen				ovary(4)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;6.96e-05)		ATGTACCTCCGATATGGAAAC	0.313													19	28	---	---	---	---	PASS
HPGDS	27306	broad.mit.edu	37	4	95239125	95239125	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:95239125G>A	uc003hte.1	-							NM_014485	NP_055300	O60760	HPGDS_HUMAN	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)	AGCTTAAAATGAAATGAGCAA	0.328													11	18	---	---	---	---	PASS
UNC5C	8633	broad.mit.edu	37	4	96140178	96140178	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:96140178G>A	uc003htp.1	-	9	1741	c.1587C>T	c.(1585-1587)TCC>TCT	p.S529S	UNC5C_uc010ilc.1_Silent_p.S548S|UNC5C_uc003htq.2_Silent_p.S548S	NM_003728	NP_003719	O95185	UNC5C_HUMAN	unc5C precursor	529	Cytoplasmic (Potential).|ZU5.				apoptosis|axon guidance|brain development	integral to membrane	netrin receptor activity			ovary(3)|pancreas(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;8.72e-10)		ATGCGGTACAGGATGGATCAG	0.488													23	51	---	---	---	---	PASS
UNC5C	8633	broad.mit.edu	37	4	96163714	96163714	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:96163714C>T	uc003htp.1	-	7	1128	c.974G>A	c.(973-975)TGG>TAG	p.W325*	UNC5C_uc010ilc.1_Nonsense_Mutation_p.W325*|UNC5C_uc003htq.2_Nonsense_Mutation_p.W325*	NM_003728	NP_003719	O95185	UNC5C_HUMAN	unc5C precursor	325	Extracellular (Potential).|TSP type-1 2.				apoptosis|axon guidance|brain development	integral to membrane	netrin receptor activity			ovary(3)|pancreas(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;8.72e-10)		ACAAGTAGACCACTTGCTCCA	0.597													7	13	---	---	---	---	PASS
UNC5C	8633	broad.mit.edu	37	4	96256570	96256570	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:96256570C>T	uc003htp.1	-	2	491	c.337G>A	c.(337-339)GAA>AAA	p.E113K	UNC5C_uc010ilc.1_Missense_Mutation_p.E113K|UNC5C_uc003htq.2_Missense_Mutation_p.E113K	NM_003728	NP_003719	O95185	UNC5C_HUMAN	unc5C precursor	113	Extracellular (Potential).|Ig-like.				apoptosis|axon guidance|brain development	integral to membrane	netrin receptor activity			ovary(3)|pancreas(1)	4		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;8.72e-10)		CCGGAAGTTTCATCTACTCTT	0.398													12	40	---	---	---	---	PASS
PDHA2	5161	broad.mit.edu	37	4	96762081	96762081	+	Silent	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:96762081T>C	uc003htr.3	+	1	843	c.780T>C	c.(778-780)GTT>GTC	p.V260V		NM_005390	NP_005381	P29803	ODPAT_HUMAN	pyruvate dehydrogenase E1 alpha 2 precursor	260					glycolysis	mitochondrial matrix	pyruvate dehydrogenase (acetyl-transferring) activity			central_nervous_system(1)	1		Hepatocellular(203;0.114)		OV - Ovarian serous cystadenocarcinoma(123;1.23e-06)	NADH(DB00157)	TTCTGTGTGTTCGTGAGGCAA	0.478													32	37	---	---	---	---	PASS
TSPAN5	10098	broad.mit.edu	37	4	99403161	99403161	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:99403161C>T	uc003hub.2	-	4	795	c.445G>A	c.(445-447)GAA>AAA	p.E149K	TSPAN5_uc011cdz.1_Missense_Mutation_p.E78K	NM_005723	NP_005714	P62079	TSN5_HUMAN	transmembrane 4 superfamily member 9	149	Extracellular (Potential).					integral to membrane					0				OV - Ovarian serous cystadenocarcinoma(123;1.89e-07)		CTTACATATTCCTGGGTGAAG	0.403													15	63	---	---	---	---	PASS
EIF4E	1977	broad.mit.edu	37	4	99823128	99823128	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:99823128G>A	uc003hue.2	-	2	1547	c.24C>T	c.(22-24)ACC>ACT	p.T8T	EIF4E_uc011cea.1_Silent_p.T28T|EIF4E_uc011ceb.1_Silent_p.T8T|EIF4E_uc011cec.1_Silent_p.T8T	NM_001968	NP_001959	P06730	IF4E_HUMAN	eukaryotic translation initiation factor 4E	8					G1/S transition of mitotic cell cycle|insulin receptor signaling pathway|interspecies interaction between organisms|mRNA export from nucleus|nuclear-transcribed mRNA poly(A) tail shortening|positive regulation of mitotic cell cycle|regulation of translation	cytoplasmic mRNA processing body|cytosol|eukaryotic translation initiation factor 4F complex|mRNA cap binding complex|RNA-induced silencing complex	protein binding|RNA cap binding|translation initiation factor activity			lung(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(123;2.7e-07)|LUSC - Lung squamous cell carcinoma(721;0.00227)		GAGTAGGGGTGGTTTCCTAGT	0.358													18	72	---	---	---	---	PASS
ADH6	130	broad.mit.edu	37	4	100131365	100131365	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:100131365G>A	uc003hup.3	-	5	535	c.441C>T	c.(439-441)TTC>TTT	p.F147F	uc003hum.1_Intron|ADH6_uc003huo.2_Silent_p.F147F|ADH6_uc011cef.1_Intron|ADH6_uc010ile.2_Silent_p.F147F	NM_000672	NP_000663	P28332	ADH6_HUMAN	class V alcohol dehydrogenase isoform 2	147					ethanol oxidation|response to ethanol|xenobiotic metabolic process	cytosol	alcohol dehydrogenase (NAD) activity|electron carrier activity|zinc ion binding			ovary(1)|kidney(1)|skin(1)	3				OV - Ovarian serous cystadenocarcinoma(123;3.58e-08)	Abacavir(DB01048)|NADH(DB00157)	TGTATTCACAGAAGGTGCTGG	0.413													20	36	---	---	---	---	PASS
ADH1A	124	broad.mit.edu	37	4	100200657	100200657	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:100200657C>T	uc003hur.1	-	8	1100	c.1029G>A	c.(1027-1029)TTG>TTA	p.L343L	uc003hum.1_Intron|ADH1A_uc011ceg.1_Silent_p.L343L	NM_000667	NP_000658	P07327	ADH1A_HUMAN	class I alcohol dehydrogenase, alpha subunit	343					ethanol oxidation|transcription, DNA-dependent|xenobiotic metabolic process	cytosol	alcohol dehydrogenase activity, zinc-dependent|protein binding|zinc ion binding			large_intestine(1)|ovary(1)	2				OV - Ovarian serous cystadenocarcinoma(123;9.56e-08)	Fomepizole(DB01213)|NADH(DB00157)	TTAATGCATCCAATGAAAACT	0.323													21	55	---	---	---	---	PASS
DDIT4L	115265	broad.mit.edu	37	4	101109073	101109073	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:101109073C>T	uc003hvq.2	-	3	546	c.343G>A	c.(343-345)GAA>AAA	p.E115K		NM_145244	NP_660287	Q96D03	DDT4L_HUMAN	DNA-damage-inducible transcript 4-like	115					negative regulation of signal transduction	cytoplasm				ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;5.75e-09)		CATACATTTTCAATTTCCAAG	0.458													19	39	---	---	---	---	PASS
DDIT4L	115265	broad.mit.edu	37	4	101109182	101109182	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:101109182G>A	uc003hvq.2	-	3	437	c.234C>T	c.(232-234)GTC>GTT	p.V78V		NM_145244	NP_660287	Q96D03	DDT4L_HUMAN	DNA-damage-inducible transcript 4-like	78					negative regulation of signal transduction	cytoplasm				ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(123;5.75e-09)		CAGGGACAAGGACCTTTGAGC	0.463													48	83	---	---	---	---	PASS
NFKB1	4790	broad.mit.edu	37	4	103455017	103455017	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:103455017T>C	uc011ceq.1	+	4	598	c.131T>C	c.(130-132)CTT>CCT	p.L44P	NFKB1_uc011cep.1_Missense_Mutation_p.L45P	NM_003998	NP_003989	P19838	NFKB1_HUMAN	nuclear factor kappa-B, subunit 1 isoform 1	44	RHD.				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)	GGCCCATACCTTCAAATATTA	0.338													9	25	---	---	---	---	PASS
COL25A1	84570	broad.mit.edu	37	4	109769932	109769932	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:109769932C>T	uc003hze.1	-	26	1948	c.1417G>A	c.(1417-1419)GGA>AGA	p.G473R	COL25A1_uc003hzg.2_Missense_Mutation_p.G473R|COL25A1_uc003hzd.2_RNA|COL25A1_uc003hzf.2_Missense_Mutation_p.G231R	NM_198721	NP_942014	Q9BXS0	COPA1_HUMAN	collagen, type XXV, alpha 1 isoform 1	473	Extracellular (Potential).|Collagen-like 6.					collagen|extracellular space	beta-amyloid binding|heparin binding			ovary(2)	2		Hepatocellular(203;0.217)		OV - Ovarian serous cystadenocarcinoma(123;0.000173)		CCATCCATTCCTGGGATTCCT	0.353													23	35	---	---	---	---	PASS
ALPK1	80216	broad.mit.edu	37	4	113353610	113353610	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:113353610C>T	uc003iap.3	+	11	3186	c.2907C>T	c.(2905-2907)ATC>ATT	p.I969I	ALPK1_uc003ian.3_Silent_p.I969I|ALPK1_uc011cfx.1_Silent_p.I891I|ALPK1_uc003iao.3_Intron|ALPK1_uc010imo.2_Silent_p.I797I	NM_025144	NP_079420	Q96QP1	ALPK1_HUMAN	alpha-kinase 1	969							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)		GGAAAGAGATCCTTGAGGCTC	0.488													22	56	---	---	---	---	PASS
ANK2	287	broad.mit.edu	37	4	114257063	114257063	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:114257063C>T	uc003ibe.3	+	30	3541	c.3441C>T	c.(3439-3441)TTC>TTT	p.F1147F	ANK2_uc003ibd.3_Silent_p.F1138F|ANK2_uc003ibf.3_Silent_p.F1147F|ANK2_uc011cgc.1_Silent_p.F323F|ANK2_uc003ibg.3_Silent_p.F142F|ANK2_uc003ibc.2_Silent_p.F1123F|ANK2_uc011cgb.1_Silent_p.F1162F	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	1114	Interaction with SPTBN1.				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)		CCCGAGACTTCCCACAGTACT	0.498													33	65	---	---	---	---	PASS
ANK2	287	broad.mit.edu	37	4	114278065	114278065	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:114278065G>A	uc003ibe.3	+	38	8391	c.8291G>A	c.(8290-8292)AGA>AAA	p.R2764K	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.R66K|ANK2_uc011cgb.1_Missense_Mutation_p.R2779K	NM_001148	NP_001139	Q01484	ANK2_HUMAN	ankyrin 2 isoform 1	2731					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)		AAGCTAAACAGAGACACTGAT	0.468													30	48	---	---	---	---	PASS
CAMK2D	817	broad.mit.edu	37	4	114680559	114680559	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:114680559G>A	uc003ibi.2	-	2	936	c.77C>T	c.(76-78)TCA>TTA	p.S26L	CAMK2D_uc003ibj.2_Missense_Mutation_p.S26L|CAMK2D_uc003ibk.2_Missense_Mutation_p.S26L|CAMK2D_uc003ibo.3_Missense_Mutation_p.S26L|CAMK2D_uc003ibm.2_Missense_Mutation_p.S26L|CAMK2D_uc003ibn.2_Missense_Mutation_p.S26L|CAMK2D_uc003ibl.2_Missense_Mutation_p.S26L	NM_001221	NP_001212	Q13557	KCC2D_HUMAN	calcium/calmodulin-dependent protein kinase II	26	ATP (By similarity).|Protein kinase.				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)		TCTCACCACTGAGAATGCCCC	0.318													20	59	---	---	---	---	PASS
NDST3	9348	broad.mit.edu	37	4	119158208	119158208	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:119158208G>A	uc003ibx.2	+	10	2354	c.1951G>A	c.(1951-1953)GAT>AAT	p.D651N	NDST3_uc011cgf.1_Missense_Mutation_p.G555E	NM_004784	NP_004775	O95803	NDST3_HUMAN	N-deacetylase/N-sulfotransferase (heparan	651	Lumenal (Potential).|Heparan sulfate N-sulfotransferase 3.					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine N-sulfotransferase activity|hydrolase activity			large_intestine(1)	1						TAGGTATATGGATTTCTTCCC	0.378													11	22	---	---	---	---	PASS
SEC24D	9871	broad.mit.edu	37	4	119665317	119665317	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:119665317G>A	uc003ici.3	-						SEC24D_uc003ich.3_Intron|SEC24D_uc003icj.3_Intron|SEC24D_uc003icl.2_Intron	NM_014822	NP_055637	O94855	SC24D_HUMAN	Sec24-related protein D						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	zinc ion binding				0						AAAGTATCTGGAAAAAAGATG	0.328													7	16	---	---	---	---	PASS
SYNPO2	171024	broad.mit.edu	37	4	119952491	119952491	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:119952491T>C	uc003icm.3	+	4	2757	c.2561T>C	c.(2560-2562)GTT>GCT	p.V854A	SYNPO2_uc010ina.2_Missense_Mutation_p.V854A|SYNPO2_uc010inb.2_Missense_Mutation_p.V854A|SYNPO2_uc011cgh.1_Intron|SYNPO2_uc010inc.2_Missense_Mutation_p.V782A	NM_001128933	NP_001122405	Q9UMS6	SYNP2_HUMAN	synaptopodin 2 isoform b	854						nucleus|Z disc	14-3-3 protein binding|actin binding|muscle alpha-actinin binding			ovary(2)	2						GTCAATGCTGTTCAGCCTGGT	0.502													26	86	---	---	---	---	PASS
MYOZ2	51778	broad.mit.edu	37	4	120085491	120085491	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:120085491C>T	uc003icp.3	+	5	715	c.502C>T	c.(502-504)CCT>TCT	p.P168S		NM_016599	NP_057683	Q9NPC6	MYOZ2_HUMAN	myozenin 2	168							protein phosphatase 2B binding				0						GGCTTTATATCCTAAACTTTT	0.443													24	28	---	---	---	---	PASS
PDE5A	8654	broad.mit.edu	37	4	120549665	120549665	+	5'Flank	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:120549665C>T	uc003idf.2	-						PDE5A_uc003idg.2_5'Flank|PDE5A_uc003idh.2_Intron|uc003idj.1_5'UTR	NM_033430	NP_236914	O76074	PDE5A_HUMAN	phosphodiesterase 5A isoform 2						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)	TCCGTGGGTCCTCTTCTTACC	0.502											OREG0016307	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	34	---	---	---	---	PASS
PDE5A	8654	broad.mit.edu	37	4	120549666	120549666	+	5'Flank	SNP	T	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:120549666T>G	uc003idf.2	-						PDE5A_uc003idg.2_5'Flank|PDE5A_uc003idh.2_Intron|uc003idj.1_5'UTR	NM_033430	NP_236914	O76074	PDE5A_HUMAN	phosphodiesterase 5A isoform 2						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)	CCGTGGGTCCTCTTCTTACCT	0.502											OREG0016307	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	35	---	---	---	---	PASS
ANXA5	308	broad.mit.edu	37	4	122591138	122591138	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:122591138G>A	uc003idu.3	-	10	821	c.751C>T	c.(751-753)CTT>TTT	p.L251F	ANXA5_uc003idv.3_Missense_Mutation_p.L251F|ANXA5_uc003idw.3_RNA|ANXA5_uc010inm.2_Missense_Mutation_p.L251F|ANXA5_uc010inn.2_Missense_Mutation_p.L191F|ANXA5_uc010ino.2_Missense_Mutation_p.L151F	NM_001154	NP_001145	P08758	ANXA5_HUMAN	annexin 5	251					anti-apoptosis|blood coagulation|negative regulation of coagulation|signal transduction	cytoplasm	calcium ion binding|calcium-dependent phospholipid binding|phospholipase inhibitor activity			ovary(1)	1						GTCTCTGCAAGGTAGGCAGGT	0.299													13	35	---	---	---	---	PASS
ANXA5	308	broad.mit.edu	37	4	122591139	122591139	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:122591139G>A	uc003idu.3	-	10	820	c.750C>T	c.(748-750)TAC>TAT	p.Y250Y	ANXA5_uc003idv.3_Silent_p.Y250Y|ANXA5_uc003idw.3_RNA|ANXA5_uc010inm.2_Silent_p.Y250Y|ANXA5_uc010inn.2_Silent_p.Y190Y|ANXA5_uc010ino.2_Silent_p.Y150Y	NM_001154	NP_001145	P08758	ANXA5_HUMAN	annexin 5	250					anti-apoptosis|blood coagulation|negative regulation of coagulation|signal transduction	cytoplasm	calcium ion binding|calcium-dependent phospholipid binding|phospholipase inhibitor activity			ovary(1)	1						TCTCTGCAAGGTAGGCAGGTA	0.299													13	35	---	---	---	---	PASS
TMEM155	132332	broad.mit.edu	37	4	122682999	122682999	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:122682999G>T	uc003idx.1	-	4	599	c.40C>A	c.(40-42)CTA>ATA	p.L14I	TMEM155_uc003idy.1_Missense_Mutation_p.L14I	NM_152399	NP_689612	Q4W5P6	TM155_HUMAN	transmembrane protein 155 precursor	14						extracellular region					0						TTGGAAATTAGTGCAACAGCC	0.328													13	37	---	---	---	---	PASS
KIAA1109	84162	broad.mit.edu	37	4	123239396	123239396	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:123239396C>T	uc003ieh.2	+	61	10810	c.10765C>T	c.(10765-10767)CGT>TGT	p.R3589C	KIAA1109_uc003iel.1_Missense_Mutation_p.R1524C	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	3589					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						AAGAGATGTTCGTAAAAAATT	0.373													15	44	---	---	---	---	PASS
KIAA1109	84162	broad.mit.edu	37	4	123245614	123245614	+	Silent	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:123245614T>C	uc003ieh.2	+	62	10872	c.10827T>C	c.(10825-10827)AGT>AGC	p.S3609S	KIAA1109_uc003iel.1_Silent_p.S1544S|KIAA1109_uc003iem.2_5'UTR	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	3609					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						GGGGTTTGAGTTACAAACCAA	0.378													11	29	---	---	---	---	PASS
KIAA1109	84162	broad.mit.edu	37	4	123260373	123260373	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:123260373C>T	uc003ieh.2	+	70	12207	c.12162C>T	c.(12160-12162)ATC>ATT	p.I4054I	KIAA1109_uc003iem.2_Silent_p.I410I|KIAA1109_uc003ien.2_5'UTR	NM_015312	NP_056127	Q2LD37	K1109_HUMAN	fragile site-associated protein	4054					regulation of cell growth|regulation of epithelial cell differentiation	integral to membrane|nucleus				ovary(8)|skin(2)|pancreas(1)|central_nervous_system(1)	12						CCTCACAGATCAAATTTAGCT	0.338													23	32	---	---	---	---	PASS
ADAD1	132612	broad.mit.edu	37	4	123350819	123350819	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:123350819G>A	uc003ieo.2	+	13	1888	c.1656G>A	c.(1654-1656)TTG>TTA	p.L552L	ADAD1_uc003iep.2_Silent_p.L541L|ADAD1_uc003ieq.2_Silent_p.L534L	NM_139243	NP_640336	Q96M93	ADAD1_HUMAN	adenosine deaminase domain containing 1	552	A to I editase.				multicellular organismal development|RNA processing	nucleus	adenosine deaminase activity|double-stranded RNA binding				0						AATGTAAGTTGAAATCCTACT	0.348													31	57	---	---	---	---	PASS
NUDT6	11162	broad.mit.edu	37	4	123838769	123838769	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:123838769G>A	uc003iew.2	-	2	361	c.329C>T	c.(328-330)TCC>TTC	p.S110F	NUDT6_uc003iex.2_5'UTR	NM_007083	NP_009014	P53370	NUDT6_HUMAN	nudix-type motif 6 isoform a	110						mitochondrion|nucleus	growth factor activity|hydrolase activity				0						GAAGCCCAGGGAAGCAGCAGG	0.507													19	39	---	---	---	---	PASS
NUDT6	11162	broad.mit.edu	37	4	123843641	123843641	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:123843641G>A	uc003iew.2	-	1	119	c.87C>T	c.(85-87)GCC>GCT	p.A29A	SPATA5_uc003iey.2_5'Flank|SPATA5_uc003iez.3_5'Flank|NUDT6_uc003iex.2_Intron	NM_007083	NP_009014	P53370	NUDT6_HUMAN	nudix-type motif 6 isoform a	29						mitochondrion|nucleus	growth factor activity|hydrolase activity				0						GTGCGCCCGAGGCCCAGCGGT	0.711													6	6	---	---	---	---	PASS
ANKRD50	57182	broad.mit.edu	37	4	125592852	125592852	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:125592852G>A	uc003ifg.3	-	3	1846	c.1580C>T	c.(1579-1581)TCC>TTC	p.S527F	ANKRD50_uc011cgo.1_Missense_Mutation_p.S348F|ANKRD50_uc010inw.2_Missense_Mutation_p.S527F	NM_020337	NP_065070	Q9ULJ7	ANR50_HUMAN	ankyrin repeat domain 50	527	ANK 2.									central_nervous_system(1)	1						TGTCCGAATGGAATCCTCTCT	0.418													26	53	---	---	---	---	PASS
FAT4	79633	broad.mit.edu	37	4	126237972	126237972	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:126237972C>T	uc003ifj.3	+	1	406	c.406C>T	c.(406-408)CCG>TCG	p.P136S		NM_024582	NP_078858	Q6V0I7	FAT4_HUMAN	FAT tumor suppressor homolog 4 precursor	136	Cadherin 2.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(9)|skin(5)|upper_aerodigestive_tract(2)|pancreas(2)	18						CCCCGTTTTCCCGGACCCCTC	0.602											OREG0016317	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	19	---	---	---	---	PASS
PLK4	10733	broad.mit.edu	37	4	128812736	128812736	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:128812736C>T	uc003ifo.2	+	9	2183	c.1938C>T	c.(1936-1938)ATC>ATT	p.I646I	PLK4_uc011cgs.1_Silent_p.I614I|PLK4_uc011cgt.1_Silent_p.I605I	NM_014264	NP_055079	O00444	PLK4_HUMAN	polo-like kinase 4	646					G2/M transition of mitotic cell cycle|positive regulation of centriole replication|trophoblast giant cell differentiation	centriole|cleavage furrow|cytosol|nucleolus	ATP binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0						TTTGGCAGATCACTATTTATT	0.333													24	26	---	---	---	---	PASS
MFSD8	256471	broad.mit.edu	37	4	128854224	128854224	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:128854224G>A	uc003ifp.2	-	9	942	c.779C>T	c.(778-780)CCC>CTC	p.P260L	MFSD8_uc011cgu.1_Missense_Mutation_p.P215L|MFSD8_uc011cgv.1_Missense_Mutation_p.P222L|MFSD8_uc011cgw.1_RNA|MFSD8_uc011cgx.1_Missense_Mutation_p.P167S	NM_152778	NP_689991	Q8NHS3	MFSD8_HUMAN	major facilitator superfamily domain containing	260	Cytoplasmic (Potential).				cell death|transmembrane transport	integral to membrane|lysosomal membrane				ovary(1)|liver(1)	2						ATTTCCTTGGGGAACCTGAGC	0.328													19	79	---	---	---	---	PASS
MFSD8	256471	broad.mit.edu	37	4	128854225	128854225	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:128854225G>A	uc003ifp.2	-	9	941	c.778C>T	c.(778-780)CCC>TCC	p.P260S	MFSD8_uc011cgu.1_Missense_Mutation_p.P215S|MFSD8_uc011cgv.1_Missense_Mutation_p.P222S|MFSD8_uc011cgw.1_RNA|MFSD8_uc011cgx.1_Silent_p.F166F	NM_152778	NP_689991	Q8NHS3	MFSD8_HUMAN	major facilitator superfamily domain containing	260	Cytoplasmic (Potential).				cell death|transmembrane transport	integral to membrane|lysosomal membrane				ovary(1)|liver(1)	2						TTTCCTTGGGGAACCTGAGCT	0.328													19	79	---	---	---	---	PASS
LARP1B	55132	broad.mit.edu	37	4	129019334	129019334	+	Intron	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:129019334T>A	uc003iga.2	+						LARP1B_uc003ifw.1_Intron|LARP1B_uc003ifx.2_Intron|LARP1B_uc003ify.2_Intron|LARP1B_uc003ifz.1_Intron	NM_018078	NP_060548	Q659C4	LAR1B_HUMAN	La ribonucleoprotein domain family member 2								RNA binding				0						CTGATTTCTCTTTTCAGTGAA	0.318													12	15	---	---	---	---	PASS
PCDH18	54510	broad.mit.edu	37	4	138442614	138442614	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:138442614C>T	uc003ihe.3	-	4	3364	c.2977G>A	c.(2977-2979)GAT>AAT	p.D993N	PCDH18_uc003ihf.3_Missense_Mutation_p.D985N|PCDH18_uc011cgz.1_Missense_Mutation_p.D204N|PCDH18_uc003ihg.3_Missense_Mutation_p.D772N|PCDH18_uc011cha.1_Missense_Mutation_p.D173N	NM_019035	NP_061908	Q9HCL0	PCD18_HUMAN	protocadherin 18 precursor	993	Interaction with DAB1 (By similarity).|Cytoplasmic (Potential).				brain development|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			pancreas(3)|skin(2)	5	all_hematologic(180;0.24)					GTGTCCTCATCGTTTGGGGAG	0.512													17	43	---	---	---	---	PASS
C4orf49	84709	broad.mit.edu	37	4	140187956	140187956	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:140187956C>T	uc003ihr.1	-	4	700	c.520G>A	c.(520-522)GAA>AAA	p.E174K		NM_032623	NP_116012	Q8TDB4	CD049_HUMAN	ovary-specific acidic protein	174						integral to membrane				central_nervous_system(1)|skin(1)	2						GGGGTTGTTTCAGGGTTTACT	0.512													35	40	---	---	---	---	PASS
INPP4B	8821	broad.mit.edu	37	4	143352413	143352413	+	5'UTR	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:143352413G>A	uc003iix.3	-	5					INPP4B_uc003iiw.3_5'UTR|INPP4B_uc011chm.1_RNA|INPP4B_uc011cho.1_RNA|INPP4B_uc003iiz.2_RNA	NM_003866	NP_003857	O15327	INP4B_HUMAN	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)					TAATTTCCATGATCAACCTTC	0.403													8	35	---	---	---	---	PASS
HHIP	64399	broad.mit.edu	37	4	145629326	145629326	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:145629326C>T	uc003ijs.1	+	7	1819	c.1164C>T	c.(1162-1164)TTC>TTT	p.F388F		NM_022475	NP_071920	Q96QV1	HHIP_HUMAN	hedgehog-interacting protein precursor	388	Interaction with SHH zinc binding site.					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)		TCAGTGATTTCACAGGCTCAG	0.423													20	43	---	---	---	---	PASS
ZNF827	152485	broad.mit.edu	37	4	146823941	146823941	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:146823941G>A	uc003ikn.2	-	2	518	c.470C>T	c.(469-471)TCC>TTC	p.S157F	ZNF827_uc003ikm.2_Missense_Mutation_p.S157F|ZNF827_uc010iox.2_Intron	NM_178835	NP_849157	Q17R98	ZN827_HUMAN	zinc finger protein 827	157					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_hematologic(180;0.151)					GGAAGGCGGGGAAAAGGAGAG	0.567													20	32	---	---	---	---	PASS
EDNRA	1909	broad.mit.edu	37	4	148441068	148441068	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:148441068C>T	uc003iky.2	+	3	1178	c.486C>T	c.(484-486)CCC>CCT	p.P162P	EDNRA_uc011cid.1_5'UTR|EDNRA_uc010ipe.1_Intron|EDNRA_uc010ipf.1_RNA|EDNRA_uc010ipg.1_Intron	NM_001957	NP_001948	P25101	EDNRA_HUMAN	endothelin receptor type A isoform a precursor	162	Helical; Name=3; (Potential).				activation of adenylate cyclase activity|artery smooth muscle contraction|cell proliferation|glucose transport|respiratory gaseous exchange	integral to plasma membrane	endothelin-A receptor activity|phosphatidylinositol phospholipase C activity			ovary(1)|breast(1)	2	all_hematologic(180;0.151)			GBM - Glioblastoma multiforme(119;0.154)	Bosentan(DB00559)	AGCTGTTCCCCTTTTTGCAGA	0.502													49	76	---	---	---	---	PASS
LRBA	987	broad.mit.edu	37	4	151656529	151656529	+	Intron	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:151656529T>A	uc010ipj.2	-						LRBA_uc003ilt.3_Intron|LRBA_uc003ilu.3_Intron	NM_006726	NP_006717	P50851	LRBA_HUMAN	LPS-responsive vesicle trafficking, beach and							endoplasmic reticulum|Golgi apparatus|integral to membrane|lysosome|plasma membrane	protein binding			ovary(3)|breast(3)|skin(1)	7	all_hematologic(180;0.151)					CTGTAAGAAATGAATGTTATC	0.353													36	45	---	---	---	---	PASS
SH3D19	152503	broad.mit.edu	37	4	152069115	152069115	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:152069115G>A	uc010ipl.1	-	11	2291	c.1201C>T	c.(1201-1203)CCT>TCT	p.P401S	SH3D19_uc003imb.2_Missense_Mutation_p.P179S|SH3D19_uc003imc.2_Missense_Mutation_p.P365S|SH3D19_uc003ime.2_Missense_Mutation_p.P401S|SH3D19_uc010ipm.2_Missense_Mutation_p.P401S	NM_001009555	NP_001009555	Q5HYK7	SH319_HUMAN	SH3 domain containing 19 isoform a	401					cellular membrane organization|positive regulation of membrane protein ectodomain proteolysis|post-Golgi vesicle-mediated transport	cytosol|Golgi apparatus|nucleus|plasma membrane	proline-rich region binding			ovary(1)|skin(1)	2	all_hematologic(180;0.093)	Acute lymphoblastic leukemia(8;0.138)				TTGGGACGAGGGGGTAGCACC	0.398													23	47	---	---	---	---	PASS
FBXW7	55294	broad.mit.edu	37	4	153271243	153271243	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:153271243G>A	uc003ims.2	-	3	684	c.535C>T	c.(535-537)CGC>TGC	p.R179C	FBXW7_uc011cii.1_Missense_Mutation_p.R179C|FBXW7_uc003imt.2_Missense_Mutation_p.R179C|FBXW7_uc011cih.1_5'Flank|FBXW7_uc003imq.2_Missense_Mutation_p.R99C|FBXW7_uc003imr.2_Missense_Mutation_p.R61C	NM_033632	NP_361014	Q969H0	FBXW7_HUMAN	F-box and WD repeat domain containing 7 isoform	179					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)				GAAAAAGAGCGGACCTCAGAA	0.308			Mis|N|D|F		colorectal|endometrial|T-ALL								4	8	---	---	---	---	PASS
TIGD4	201798	broad.mit.edu	37	4	153692076	153692076	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:153692076G>A	uc003imy.2	-	2	863	c.81C>T	c.(79-81)ATC>ATT	p.I27I		NM_145720	NP_663772	Q8IY51	TIGD4_HUMAN	tigger transposable element derived 4	27	HTH psq-type.				regulation of transcription, DNA-dependent	chromosome, centromeric region|nucleus	chromatin binding|DNA binding			ovary(1)	1	all_hematologic(180;0.093)					TTATGATGTCGATCTTTTCCT	0.383													25	41	---	---	---	---	PASS
FHDC1	85462	broad.mit.edu	37	4	153864526	153864526	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:153864526C>T	uc003inf.2	+	1	392	c.317C>T	c.(316-318)CCG>CTG	p.P106L		NM_033393	NP_203751	Q9C0D6	FHDC1_HUMAN	FH2 domain containing 1	106	FH2.				actin cytoskeleton organization		actin binding			large_intestine(1)|ovary(1)	2	all_hematologic(180;0.093)					AAAACTATTCCGGAGGAGCAA	0.502													61	170	---	---	---	---	PASS
TRIM2	23321	broad.mit.edu	37	4	154237038	154237038	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:154237038C>T	uc003ing.2	+	8	1789	c.1588C>T	c.(1588-1590)CCG>TCG	p.P530S	TRIM2_uc003inh.2_Missense_Mutation_p.P557S	NM_001130067	NP_001123539	Q9C040	TRIM2_HUMAN	tripartite motif-containing 2 isoform 2	530	NHL 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)		GGGACGCTCTCCGGGGCAGCT	0.463													9	61	---	---	---	---	PASS
TLR2	7097	broad.mit.edu	37	4	154625881	154625881	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:154625881C>T	uc003inq.2	+	3	2041	c.1822C>T	c.(1822-1824)CTG>TTG	p.L608L	TLR2_uc003inr.2_Silent_p.L608L|TLR2_uc003ins.2_Silent_p.L608L	NM_003264	NP_003255	O60603	TLR2_HUMAN	toll-like receptor 2 precursor	608	Helical; (Potential).				cellular response to diacyl bacterial lipopeptide|cellular response to lipoteichoic acid|cellular response to triacyl bacterial lipopeptide|detection of diacyl bacterial lipopeptide|detection of triacyl bacterial lipopeptide|I-kappaB phosphorylation|induction of apoptosis|inflammatory response|innate immune response|MyD88-dependent toll-like receptor signaling pathway|positive regulation of chemokine production|positive regulation of interferon-beta production|positive regulation of interleukin-12 production|positive regulation of interleukin-18 production|positive regulation of interleukin-6 production|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 toll-like receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tumor necrosis factor production|positive regulation of Wnt receptor signaling pathway|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 4 signaling pathway	cytoplasm|integral to plasma membrane|Toll-like receptor 1-Toll-like receptor 2 protein complex	Gram-positive bacterial cell surface binding|lipopolysaccharide receptor activity|peptidoglycan binding|protein heterodimerization activity|transmembrane receptor activity|triacyl lipopeptide binding			ovary(1)|lung(1)|breast(1)	3	all_hematologic(180;0.093)	Renal(120;0.117)				CACGGGGGTCCTGTGCCACCG	0.572													17	15	---	---	---	---	PASS
DCHS2	54798	broad.mit.edu	37	4	155156464	155156464	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:155156464G>A	uc003inw.2	-	25	7975	c.7975C>T	c.(7975-7977)CCC>TCC	p.P2659S		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	2659					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)		TTTCTGTAGGGATGCTCATTT	0.512													24	40	---	---	---	---	PASS
DCHS2	54798	broad.mit.edu	37	4	155243554	155243554	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:155243554A>T	uc003inw.2	-	13	2740	c.2740T>A	c.(2740-2742)TAC>AAC	p.Y914N		NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	914	Cadherin 7.				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)		CTCATTCTGTAGGAAGGTCTA	0.398													12	40	---	---	---	---	PASS
DCHS2	54798	broad.mit.edu	37	4	155278421	155278421	+	Silent	SNP	C	T	T	rs149265546	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:155278421C>T	uc003inw.2	-	6	750	c.750G>A	c.(748-750)AAG>AAA	p.K250K	DCHS2_uc003inx.2_Intron	NM_017639	NP_060109	Q6V1P9	PCD23_HUMAN	dachsous 2 isoform 1	250	Cadherin 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)		tcattacttccttgtctgctg	0.000													32	97	---	---	---	---	PASS
PLRG1	5356	broad.mit.edu	37	4	155460272	155460272	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:155460272A>G	uc003iny.2	-	12	1199	c.1136T>C	c.(1135-1137)GTT>GCT	p.V379A	PLRG1_uc003inz.2_Missense_Mutation_p.V370A	NM_002669	NP_002660	O43660	PLRG1_HUMAN	pleiotropic regulator 1 (PRL1 homolog,	379	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)				TGGATGTAAAACCACAGCCCT	0.358													24	46	---	---	---	---	PASS
FGB	2244	broad.mit.edu	37	4	155489637	155489637	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:155489637G>A	uc003ioa.3	+	5	862	c.823G>A	c.(823-825)GAA>AAA	p.E275K	FGB_uc003iob.3_Missense_Mutation_p.E272K|FGB_uc010ipv.2_Missense_Mutation_p.E213K|FGB_uc010ipw.2_Missense_Mutation_p.E272K|FGB_uc003ioc.3_Missense_Mutation_p.E56K	NM_005141	NP_005132	P02675	FIBB_HUMAN	fibrinogen, beta chain preproprotein	275	Fibrinogen C-terminal.				platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen|soluble fraction	chaperone binding|eukaryotic cell surface binding|protein binding, bridging|receptor binding			ovary(2)|upper_aerodigestive_tract(1)	3	all_hematologic(180;0.215)	Renal(120;0.0458)			Sucralfate(DB00364)	CATGAATACAGAAAATGGAGG	0.333													14	24	---	---	---	---	PASS
FGA	2243	broad.mit.edu	37	4	155506702	155506702	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:155506702G>A	uc003iod.1	-	5	1937	c.1879C>T	c.(1879-1881)CGC>TGC	p.R627C	FGA_uc003ioe.1_Missense_Mutation_p.R627C|FGA_uc003iof.1_3'UTR	NM_000508	NP_000499	P02671	FIBA_HUMAN	fibrinogen, alpha polypeptide isoform alpha-E	627	By similarity.|Fibrinogen C-terminal.				platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen	eukaryotic cell surface binding|protein binding, bridging|receptor binding			ovary(2)|breast(1)	3	all_hematologic(180;0.215)	Renal(120;0.0458)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Sucralfate(DB00364)|Tenecteplase(DB00031)	ctgaCAGGGCGAGATTTAGCA	0.259													19	46	---	---	---	---	PASS
FGA	2243	broad.mit.edu	37	4	155508818	155508818	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:155508818G>A	uc003iod.1	-						FGA_uc003ioe.1_Intron|FGA_uc003iof.1_Intron	NM_000508	NP_000499	P02671	FIBA_HUMAN	fibrinogen, alpha polypeptide isoform alpha-E						platelet activation|platelet degranulation|protein polymerization|response to calcium ion|signal transduction	external side of plasma membrane|fibrinogen complex|platelet alpha granule lumen	eukaryotic cell surface binding|protein binding, bridging|receptor binding			ovary(2)|breast(1)	3	all_hematologic(180;0.215)	Renal(120;0.0458)			Alteplase(DB00009)|Anistreplase(DB00029)|Reteplase(DB00015)|Sucralfate(DB00364)|Tenecteplase(DB00031)	GTCTGAAATCGAAAATATGGT	0.308													17	52	---	---	---	---	PASS
TDO2	6999	broad.mit.edu	37	4	156824933	156824933	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:156824933G>A	uc003ipf.1	+	1	87	c.23G>A	c.(22-24)GGA>GAA	p.G8E		NM_005651	NP_005642	P48775	T23O_HUMAN	tryptophan 2,3-dioxygenase	8					tryptophan catabolic process to kynurenine	cytosol	tryptophan 2,3-dioxygenase activity				0	all_hematologic(180;0.24)	Renal(120;0.0854)		KIRC - Kidney renal clear cell carcinoma(143;0.0455)|Kidney(143;0.0568)|COAD - Colon adenocarcinoma(41;0.141)	L-Tryptophan(DB00150)	CCATTTTTAGGAAACAACTTT	0.408													20	33	---	---	---	---	PASS
CTSO	1519	broad.mit.edu	37	4	156849538	156849538	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:156849538G>A	uc003ipg.2	-	7	930	c.881C>T	c.(880-882)TCT>TTT	p.S294F		NM_001334	NP_001325	P43234	CATO_HUMAN	cathepsin O preproprotein	294					proteolysis	lysosome	cysteine-type endopeptidase activity				0	all_hematologic(180;0.24)	Renal(120;0.0458)		KIRC - Kidney renal clear cell carcinoma(143;0.05)|Kidney(143;0.0627)|COAD - Colon adenocarcinoma(41;0.148)		TACTCCCCAAGAACTTCCCCA	0.348													24	31	---	---	---	---	PASS
GRIA2	2891	broad.mit.edu	37	4	158224874	158224874	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:158224874G>A	uc003ipm.3	+	3	859	c.400G>A	c.(400-402)GGA>AGA	p.G134R	GRIA2_uc011cit.1_Missense_Mutation_p.G87R|GRIA2_uc003ipl.3_Missense_Mutation_p.G134R|GRIA2_uc003ipk.3_Missense_Mutation_p.G87R|GRIA2_uc010iqh.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	134	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)	CGACCTCAAAGGAGCTCTCCT	0.448													34	105	---	---	---	---	PASS
GRIA2	2891	broad.mit.edu	37	4	158281079	158281079	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:158281079G>A	uc003ipm.3	+	13	2534	c.2075G>A	c.(2074-2076)TGG>TAG	p.W692*	GRIA2_uc011cit.1_Nonsense_Mutation_p.W645*|GRIA2_uc003ipl.3_Nonsense_Mutation_p.W692*|GRIA2_uc003ipk.3_Nonsense_Mutation_p.W645*|GRIA2_uc010iqh.1_RNA|GRIA2_uc011ciu.1_Nonsense_Mutation_p.W2*|GRIA2_uc011civ.1_RNA|GRIA2_uc011ciw.1_RNA|GRIA2_uc011cix.1_Nonsense_Mutation_p.W2*|GRIA2_uc011ciy.1_Nonsense_Mutation_p.W2*|GRIA2_uc011ciz.1_RNA	NM_001083619	NP_001077088	P42262	GRIA2_HUMAN	glutamate receptor, ionotropic, AMPA 2 isoform 2	692	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)	GATAAAATGTGGACCTACATG	0.458													20	20	---	---	---	---	PASS
FNIP2	57600	broad.mit.edu	37	4	159790431	159790431	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:159790431C>T	uc003iqe.3	+	13	2826	c.2643C>T	c.(2641-2643)TTC>TTT	p.F881F		NM_020840	NP_065891	Q9P278	FNIP2_HUMAN	folliculin interacting protein 2	881	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)		AGGCCAACTTCAGGACTGAAG	0.597													11	14	---	---	---	---	PASS
RAPGEF2	9693	broad.mit.edu	37	4	160277247	160277247	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:160277247C>T	uc003iqg.3	+	23	4721	c.4411C>T	c.(4411-4413)CCG>TCG	p.P1471S		NM_014247	NP_055062	Q9Y4G8	RPGF2_HUMAN	Rap guanine nucleotide exchange factor 2	1471					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)		GTGGCATAAACCGAACGAGTC	0.552													7	23	---	---	---	---	PASS
RAPGEF2	9693	broad.mit.edu	37	4	160277248	160277248	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:160277248C>T	uc003iqg.3	+	23	4722	c.4412C>T	c.(4411-4413)CCG>CTG	p.P1471L		NM_014247	NP_055062	Q9Y4G8	RPGF2_HUMAN	Rap guanine nucleotide exchange factor 2	1471					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)		TGGCATAAACCGAACGAGTCT	0.552													6	24	---	---	---	---	PASS
FSTL5	56884	broad.mit.edu	37	4	162697122	162697122	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:162697122C>T	uc003iqh.2	-	5	950	c.514G>A	c.(514-516)GAC>AAC	p.D172N	FSTL5_uc003iqi.2_Missense_Mutation_p.D171N|FSTL5_uc010iqv.2_Missense_Mutation_p.D171N	NM_020116	NP_064501	Q8N475	FSTL5_HUMAN	follistatin-like 5 isoform a	172						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)		CGAGATATGTCGTCGCCATTA	0.303													23	47	---	---	---	---	PASS
NPY5R	4889	broad.mit.edu	37	4	164272282	164272282	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:164272282G>A	uc003iqn.2	+	4	1039	c.857G>A	c.(856-858)AGA>AAA	p.R286K		NM_006174	NP_006165	Q15761	NPY5R_HUMAN	neuropeptide Y receptor Y5	286	Cytoplasmic (Potential).				cardiac left ventricle morphogenesis|outflow tract morphogenesis	integral to plasma membrane				lung(6)|skin(1)	7	all_hematologic(180;0.166)	Prostate(90;0.109)				AAAAAACACAGAAGAAGATAT	0.413													19	74	---	---	---	---	PASS
MARCH1	55016	broad.mit.edu	37	4	164506934	164506934	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:164506934G>A	uc003iqs.1	-	6	1367	c.390C>T	c.(388-390)TTC>TTT	p.F130F	MARCH1_uc003iqr.1_Silent_p.F113F	NM_017923	NP_060393	Q8TCQ1	MARH1_HUMAN	membrane-associated RING-CH protein I	130	RING-CH-type.				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)				TCTCCATTATGAAGTCATACT	0.493													17	60	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	4	165980744	165980744	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:165980744C>T	uc011cjl.1	+	1	445	c.445C>T	c.(445-447)CAG>TAG	p.Q149*		NM_001105575	NP_001099045			tripartite motif-containing 75																		CAGTTACATCCAGCCCCTGAA	0.478													25	67	---	---	---	---	PASS
ANXA10	11199	broad.mit.edu	37	4	169049227	169049227	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:169049227C>T	uc003irm.2	+							NM_007193	NP_009124	Q9UJ72	ANX10_HUMAN	annexin A10								calcium ion binding|calcium-dependent phospholipid binding				0		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.0325)		CATTGATTTTCCCACCAGGTG	0.308													14	42	---	---	---	---	PASS
ANXA10	11199	broad.mit.edu	37	4	169083674	169083674	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:169083674C>T	uc003irm.2	+						ANXA10_uc003irn.2_5'Flank	NM_007193	NP_009124	Q9UJ72	ANX10_HUMAN	annexin A10								calcium ion binding|calcium-dependent phospholipid binding				0		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.0325)		CTTTTTCCTCCACAGGACCTG	0.378													9	32	---	---	---	---	PASS
NEK1	4750	broad.mit.edu	37	4	170506580	170506580	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:170506580G>A	uc003isb.1	-	9	1219	c.727C>T	c.(727-729)CCT>TCT	p.P243S	NEK1_uc003isc.1_Missense_Mutation_p.P243S|NEK1_uc003isd.1_Missense_Mutation_p.P243S|NEK1_uc003ise.1_Missense_Mutation_p.P243S|NEK1_uc003isf.1_Missense_Mutation_p.P243S|NEK1_uc003isg.1_Missense_Mutation_p.P164S	NM_012224	NP_036356	Q96PY6	NEK1_HUMAN	NIMA-related kinase 1	243	Protein kinase.				cell division|cilium assembly|mitosis	nucleus|pericentriolar material	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(3)|ovary(2)|large_intestine(1)	6		Prostate(90;0.00601)|Renal(120;0.0183)		GBM - Glioblastoma multiforme(119;0.0287)|KIRC - Kidney renal clear cell carcinoma(143;0.0325)|Kidney(143;0.0385)|LUSC - Lung squamous cell carcinoma(193;0.14)		CTATCCCTAGGATTTCTTTTA	0.373													16	46	---	---	---	---	PASS
GLRA3	8001	broad.mit.edu	37	4	175749928	175749928	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:175749928G>A	uc003ity.1	-	1	538	c.35C>T	c.(34-36)TCG>TTG	p.S12L	GLRA3_uc003itz.1_Missense_Mutation_p.S12L|uc003iua.1_5'Flank|uc003iub.1_5'Flank	NM_006529	NP_006520	O75311	GLRA3_HUMAN	glycine receptor, alpha 3 isoform a	12					synaptic transmission	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity			ovary(3)	3		Prostate(90;0.00601)|Breast(14;0.0091)|Melanoma(52;0.00959)|Renal(120;0.0183)|all_neural(102;0.0891)|all_hematologic(60;0.107)		all cancers(43;4.99e-18)|Epithelial(43;1.18e-16)|OV - Ovarian serous cystadenocarcinoma(60;5.88e-09)|STAD - Stomach adenocarcinoma(60;0.00442)|GBM - Glioblastoma multiforme(59;0.0102)|LUSC - Lung squamous cell carcinoma(193;0.0421)	Glycine(DB00145)	GTAAAATCCCGAAACTAATGT	0.458													18	50	---	---	---	---	PASS
ADAM29	11086	broad.mit.edu	37	4	175898683	175898683	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:175898683G>A	uc003iuc.2	+	5	2677	c.2007G>A	c.(2005-2007)AAG>AAA	p.K669K	ADAM29_uc003iud.2_Silent_p.K669K|ADAM29_uc010irr.2_Silent_p.K669K|ADAM29_uc011cki.1_Silent_p.K669K	NM_014269	NP_055084	Q9UKF5	ADA29_HUMAN	ADAM metallopeptidase domain 29 preproprotein	669	Poly-Lys.|Extracellular (Potential).				proteolysis|spermatogenesis	integral to plasma membrane	metalloendopeptidase activity|zinc ion binding			skin(5)|central_nervous_system(3)|ovary(3)|large_intestine(2)|lung(2)|pancreas(1)	16		Breast(14;0.00908)|Melanoma(52;0.00951)|Prostate(90;0.00996)|Renal(120;0.0183)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;3.08e-19)|Epithelial(43;6.24e-18)|OV - Ovarian serous cystadenocarcinoma(60;1.78e-09)|STAD - Stomach adenocarcinoma(60;0.00303)|GBM - Glioblastoma multiforme(59;0.0106)|LUSC - Lung squamous cell carcinoma(193;0.0286)		CACCCCCTAAGAGAAAGAAGA	0.368													13	38	---	---	---	---	PASS
GPM6A	2823	broad.mit.edu	37	4	176561960	176561960	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:176561960C>T	uc003iuf.2	-	5	1366	c.562G>A	c.(562-564)GAA>AAA	p.E188K	GPM6A_uc011ckj.1_Missense_Mutation_p.E181K|GPM6A_uc003iug.2_Missense_Mutation_p.E188K|GPM6A_uc003iuh.2_Missense_Mutation_p.E177K	NM_201591	NP_963885	P51674	GPM6A_HUMAN	glycoprotein M6A isoform 2	188	Extracellular (Potential).					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)		ATTTTCTTTTCCTCTCCAATT	0.338													5	14	---	---	---	---	PASS
WDR17	116966	broad.mit.edu	37	4	177061074	177061074	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:177061074G>A	uc003iuj.2	+	11	1619	c.1463G>A	c.(1462-1464)TGG>TAG	p.W488*	WDR17_uc003iuk.2_Nonsense_Mutation_p.W464*|WDR17_uc003ium.3_Nonsense_Mutation_p.W464*|WDR17_uc003iul.1_Intron	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	488	WD 8.									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)		TGCATTGCCTGGAGTCATAAA	0.308													42	72	---	---	---	---	PASS
WDR17	116966	broad.mit.edu	37	4	177063130	177063130	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:177063130C>T	uc003iuj.2	+						WDR17_uc003iuk.2_Intron|WDR17_uc003ium.3_Intron|WDR17_uc003iul.1_Intron	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	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)		ATAATTAATTCTAGTATTATT	0.279													11	11	---	---	---	---	PASS
WDR17	116966	broad.mit.edu	37	4	177073061	177073061	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:177073061C>T	uc003iuj.2	+	18	2631	c.2475C>T	c.(2473-2475)ATC>ATT	p.I825I	WDR17_uc003iuk.2_Silent_p.I801I|WDR17_uc003ium.3_Silent_p.I801I|WDR17_uc003iul.1_Intron|WDR17_uc003iun.2_Silent_p.I44I	NM_170710	NP_733828	Q8IZU2	WDR17_HUMAN	WD repeat domain 17 isoform 1	825										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)		CTGCTGAAATCCACTTGAGAT	0.378													24	40	---	---	---	---	PASS
ASB5	140458	broad.mit.edu	37	4	177138125	177138125	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:177138125G>A	uc003iuq.1	-	6	722	c.706C>T	c.(706-708)CCA>TCA	p.P236S	ASB5_uc003iup.1_Missense_Mutation_p.P183S	NM_080874	NP_543150	Q8WWX0	ASB5_HUMAN	ankyrin repeat and SOCS box-containing protein	236	ANK 6.				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)		GCATGTAATGGAGTATCCCAA	0.353													33	85	---	---	---	---	PASS
ODZ3	55714	broad.mit.edu	37	4	183651478	183651478	+	Intron	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:183651478T>C	uc003ivd.1	+						ODZ3_uc003ive.1_Intron	NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	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)		GGAATGTGAGTTAGTCCCATC	0.398													28	30	---	---	---	---	PASS
ODZ3	55714	broad.mit.edu	37	4	183713580	183713580	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:183713580G>A	uc003ivd.1	+	25	5792	c.5755G>A	c.(5755-5757)GAA>AAA	p.E1919K		NM_001080477	NP_001073946	Q9P273	TEN3_HUMAN	odz, odd Oz/ten-m homolog 3	1919	Extracellular (Potential).|YD 8.				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)		CAACCCCCCGGAAAGCAACGC	0.537													18	70	---	---	---	---	PASS
WWC2	80014	broad.mit.edu	37	4	184233490	184233490	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:184233490C>T	uc010irx.2	+						WWC2_uc003ivk.3_Intron|WWC2_uc003ivl.3_Intron|WWC2_uc010iry.2_Intron|WWC2_uc003ivn.3_Intron|WWC2_uc010irz.2_Intron|WWC2_uc003ivo.3_Intron	NM_024949	NP_079225	Q6AWC2	WWC2_HUMAN	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)		ATTCCCTTTTCCAGGCTGAAC	0.468													63	102	---	---	---	---	PASS
STOX2	56977	broad.mit.edu	37	4	184932261	184932261	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:184932261C>T	uc003ivz.1	+	3	3705	c.2270C>T	c.(2269-2271)TCC>TTC	p.S757F	STOX2_uc003iwa.1_Missense_Mutation_p.S446F	NM_020225	NP_064610	Q9P2F5	STOX2_HUMAN	storkhead box 2	757					embryo development|maternal placenta development						0		all_lung(41;1.89e-12)|Lung NSC(41;3.48e-12)|Colorectal(36;0.00435)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|all_hematologic(60;0.027)|Prostate(90;0.0283)		all cancers(43;2.85e-26)|Epithelial(43;2.27e-22)|OV - Ovarian serous cystadenocarcinoma(60;3.4e-10)|Colorectal(24;8.23e-06)|GBM - Glioblastoma multiforme(59;1.64e-05)|STAD - Stomach adenocarcinoma(60;3.6e-05)|COAD - Colon adenocarcinoma(29;4.37e-05)|LUSC - Lung squamous cell carcinoma(40;0.008)|READ - Rectum adenocarcinoma(43;0.227)		ATGCCTGCTTCCCAGCGTCAG	0.552													10	8	---	---	---	---	PASS
HELT	391723	broad.mit.edu	37	4	185941590	185941590	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:185941590G>A	uc011ckq.1	+	4	648	c.648G>A	c.(646-648)GAG>GAA	p.E216E	HELT_uc011cko.1_Silent_p.E131E|HELT_uc003ixa.3_Silent_p.E130E|HELT_uc011ckp.1_Silent_p.E74E	NM_001029887	NP_001025058	A6NFD8	HELT_HUMAN	HES/HEY-like transcription factor	216							DNA binding				0		all_lung(41;9.65e-12)|Lung NSC(41;1.64e-11)|Colorectal(36;0.0215)|Renal(120;0.0246)|Hepatocellular(41;0.0268)|Prostate(90;0.0283)|all_hematologic(60;0.0749)		all cancers(43;8.92e-26)|Epithelial(43;3.02e-23)|OV - Ovarian serous cystadenocarcinoma(60;2.59e-11)|Colorectal(24;4.79e-05)|BRCA - Breast invasive adenocarcinoma(30;7.72e-05)|GBM - Glioblastoma multiforme(59;0.000274)|COAD - Colon adenocarcinoma(29;0.000362)|STAD - Stomach adenocarcinoma(60;0.000756)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.155)		TGGGCGCGGAGCCCGCCTTTC	0.677													5	25	---	---	---	---	PASS
SNX25	83891	broad.mit.edu	37	4	186209226	186209226	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:186209226G>A	uc003ixh.2	+	6	849	c.660G>A	c.(658-660)AAG>AAA	p.K220K		NM_031953	NP_114159	Q9H3E2	SNX25_HUMAN	sorting nexin 25	220					cell communication|protein transport	endosome membrane	phosphatidylinositol binding|signal transducer activity			ovary(2)|breast(2)|pancreas(1)	5		all_lung(41;1.03e-13)|Lung NSC(41;2.5e-13)|Hepatocellular(41;0.00826)|Colorectal(36;0.00886)|Renal(120;0.00988)|Prostate(90;0.0235)|all_hematologic(60;0.0592)|all_neural(102;0.243)		all cancers(43;2.13e-24)|Epithelial(43;6.15e-22)|OV - Ovarian serous cystadenocarcinoma(60;5.6e-11)|BRCA - Breast invasive adenocarcinoma(30;0.00013)|Colorectal(24;0.000165)|GBM - Glioblastoma multiforme(59;0.000357)|COAD - Colon adenocarcinoma(29;0.000887)|STAD - Stomach adenocarcinoma(60;0.00118)|LUSC - Lung squamous cell carcinoma(40;0.0129)|READ - Rectum adenocarcinoma(43;0.228)		CCCAACTGAAGAGGCACAAAG	0.413													28	37	---	---	---	---	PASS
SORBS2	8470	broad.mit.edu	37	4	186536046	186536046	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:186536046C>T	uc003iyl.2	-	17	3680	c.2822G>A	c.(2821-2823)GGA>GAA	p.G941E	SORBS2_uc003iyh.2_Missense_Mutation_p.G665E|SORBS2_uc011ckw.1_Missense_Mutation_p.G502E|SORBS2_uc003iyi.2_Missense_Mutation_p.G572E|SORBS2_uc011ckx.1_Missense_Mutation_p.G507E|SORBS2_uc003iyk.2_Missense_Mutation_p.G485E|SORBS2_uc003iym.2_Missense_Mutation_p.G1041E|SORBS2_uc003iyn.1_Missense_Mutation_p.G532E|SORBS2_uc011cku.1_Missense_Mutation_p.G333E|SORBS2_uc011ckv.1_Missense_Mutation_p.G845E|SORBS2_uc003iyd.2_Missense_Mutation_p.G640E|SORBS2_uc003iye.2_Missense_Mutation_p.G514E|SORBS2_uc003iya.2_Missense_Mutation_p.G461E|SORBS2_uc003iyb.2_Missense_Mutation_p.G414E|SORBS2_uc003iyc.2_Missense_Mutation_p.G394E|SORBS2_uc003iyg.2_Missense_Mutation_p.G1055E|SORBS2_uc003iyf.2_Missense_Mutation_p.G477E|SORBS2_uc003iyo.1_Missense_Mutation_p.G390E	NM_021069	NP_066547	O94875	SRBS2_HUMAN	sorbin and SH3 domain containing 2 isoform 2	941	SH3 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)		TATAGCTTCTCCGATTTCTCC	0.423													9	29	---	---	---	---	PASS
SORBS2	8470	broad.mit.edu	37	4	186536122	186536122	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:186536122G>A	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|SORBS2_uc003iyo.1_Intron	NM_021069	NP_066547	O94875	SRBS2_HUMAN	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)		TTCTATGAAGGAAATAGTCAT	0.488													21	39	---	---	---	---	PASS
KLKB1	3818	broad.mit.edu	37	4	187159513	187159513	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:187159513G>A	uc003iyy.2	+	6	663	c.592G>A	c.(592-594)GAA>AAA	p.E198K	KLKB1_uc011clc.1_5'UTR|KLKB1_uc011cld.1_Missense_Mutation_p.E160K	NM_000892	NP_000883	P03952	KLKB1_HUMAN	plasma kallikrein B1 precursor	198					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)		TGCCCTTTCAGAAATTGGTAA	0.299													15	40	---	---	---	---	PASS
FAT1	2195	broad.mit.edu	37	4	187584747	187584747	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:187584747G>A	uc003izf.2	-	3	3474	c.3286C>T	c.(3286-3288)CGA>TGA	p.R1096*		NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	1096	Extracellular (Potential).|Cadherin 9.				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						CGGTCCAGTCGATCTGACGTC	0.463										HNSCC(5;0.00058)			7	28	---	---	---	---	PASS
FAT1	2195	broad.mit.edu	37	4	187629604	187629604	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:187629604G>A	uc003izf.2	-	2	1566	c.1378C>T	c.(1378-1380)CCC>TCC	p.P460S	FAT1_uc010iso.1_Missense_Mutation_p.P460S	NM_005245	NP_005236	Q14517	FAT1_HUMAN	FAT tumor suppressor 1 precursor	460	Extracellular (Potential).|Cadherin 3.				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						AATTCAGGGGGATTGCTATTT	0.473										HNSCC(5;0.00058)			77	112	---	---	---	---	PASS
TRIML1	339976	broad.mit.edu	37	4	189061083	189061083	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:189061083G>A	uc003izm.1	+	1	486	c.371G>A	c.(370-372)AGA>AAA	p.R124K		NM_178556	NP_848651	Q8N9V2	TRIML_HUMAN	tripartite motif family-like 1	124					multicellular organismal development		ligase activity|zinc ion binding			ovary(1)|pancreas(1)|breast(1)|skin(1)	4		all_cancers(14;1.33e-43)|all_epithelial(14;7.86e-31)|all_lung(41;4.3e-13)|Lung NSC(41;9.69e-13)|Melanoma(20;7.86e-05)|Breast(6;0.000148)|Hepatocellular(41;0.0218)|Renal(120;0.0376)|Prostate(90;0.0513)|all_hematologic(60;0.062)		OV - Ovarian serous cystadenocarcinoma(60;1.52e-11)|BRCA - Breast invasive adenocarcinoma(30;4.19e-06)|GBM - Glioblastoma multiforme(59;0.000232)|STAD - Stomach adenocarcinoma(60;0.000279)|LUSC - Lung squamous cell carcinoma(40;0.00902)|READ - Rectum adenocarcinoma(43;0.156)		GGTGCAAACAGAGTGCATCTC	0.592													11	39	---	---	---	---	PASS
SLC12A7	10723	broad.mit.edu	37	5	1087030	1087030	+	Silent	SNP	G	A	A	rs148809420	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:1087030G>A	uc003jbu.2	-	6	729	c.663C>T	c.(661-663)ATC>ATT	p.I221I		NM_006598	NP_006589	Q9Y666	S12A7_HUMAN	solute carrier family 12 (potassium/chloride	221	Helical; (Potential).				potassium ion transport|sodium ion transport	integral to plasma membrane	potassium:chloride symporter activity			skin(2)|large_intestine(1)|ovary(1)	4	Lung NSC(6;2.47e-13)|all_lung(6;1.67e-12)|all_epithelial(6;5.44e-09)		Epithelial(17;0.000497)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|all cancers(22;0.00241)|Lung(60;0.165)		Potassium Chloride(DB00761)	GAAAAATCTCGATGGTCCCCA	0.587													16	48	---	---	---	---	PASS
SLC12A7	10723	broad.mit.edu	37	5	1093770	1093770	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:1093770C>T	uc003jbu.2	-	3	286	c.220G>A	c.(220-222)GAG>AAG	p.E74K		NM_006598	NP_006589	Q9Y666	S12A7_HUMAN	solute carrier family 12 (potassium/chloride	74	Cytoplasmic (Potential).				potassium ion transport|sodium ion transport	integral to plasma membrane	potassium:chloride symporter activity			skin(2)|large_intestine(1)|ovary(1)	4	Lung NSC(6;2.47e-13)|all_lung(6;1.67e-12)|all_epithelial(6;5.44e-09)		Epithelial(17;0.000497)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|all cancers(22;0.00241)|Lung(60;0.165)		Potassium Chloride(DB00761)	TCCATCTCCTCCTGCGCGGCG	0.682													5	7	---	---	---	---	PASS
SLC6A19	340024	broad.mit.edu	37	5	1208984	1208984	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:1208984C>T	uc003jbw.3	+	2	382	c.326C>T	c.(325-327)CCG>CTG	p.P109L		NM_001003841	NP_001003841	Q695T7	S6A19_HUMAN	solute carrier family 6, member 19	109	Cytoplasmic (Potential).				cellular nitrogen compound metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity				0	all_cancers(3;3.55e-15)|Lung NSC(6;2.89e-14)|all_lung(6;2.2e-13)|all_epithelial(6;3.75e-10)		Epithelial(17;0.000356)|all cancers(22;0.00137)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			TCCATCCACCCGGCCCTGAAG	0.701													7	13	---	---	---	---	PASS
SLC6A19	340024	broad.mit.edu	37	5	1222025	1222025	+	3'UTR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:1222025C>T	uc003jbw.3	+	12						NM_001003841	NP_001003841	Q695T7	S6A19_HUMAN	solute carrier family 6, member 19						cellular nitrogen compound metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity				0	all_cancers(3;3.55e-15)|Lung NSC(6;2.89e-14)|all_lung(6;2.2e-13)|all_epithelial(6;3.75e-10)		Epithelial(17;0.000356)|all cancers(22;0.00137)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			ACTGAGAAGGCCCATCCCACG	0.572													4	21	---	---	---	---	PASS
SLC6A19	340024	broad.mit.edu	37	5	1222026	1222026	+	3'UTR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:1222026C>T	uc003jbw.3	+	12						NM_001003841	NP_001003841	Q695T7	S6A19_HUMAN	solute carrier family 6, member 19						cellular nitrogen compound metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity				0	all_cancers(3;3.55e-15)|Lung NSC(6;2.89e-14)|all_lung(6;2.2e-13)|all_epithelial(6;3.75e-10)		Epithelial(17;0.000356)|all cancers(22;0.00137)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			CTGAGAAGGCCCATCCCACGG	0.572													4	21	---	---	---	---	PASS
SLC6A18	348932	broad.mit.edu	37	5	1244320	1244320	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:1244320C>T	uc003jby.1	+							NM_182632	NP_872438	Q96N87	S6A18_HUMAN	solute carrier family 6, member 18						cellular nitrogen compound metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			ovary(1)	1	all_cancers(3;2.99e-16)|Lung NSC(6;8.55e-15)|all_lung(6;7.2e-14)|all_epithelial(6;1.76e-10)		Epithelial(17;0.000356)|all cancers(22;0.00124)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			CCCTTTCCCACTGCCCCAGGG	0.642													12	23	---	---	---	---	PASS
SLC6A3	6531	broad.mit.edu	37	5	1422015	1422015	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:1422015C>T	uc003jck.2	-	5	889	c.768G>A	c.(766-768)TGG>TGA	p.W256*		NM_001044	NP_001035	Q01959	SC6A3_HUMAN	solute carrier family 6 (neurotransmitter	256	Helical; Name=4; (Potential).				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)	TCACGCCCTTCCAGAGGCTGA	0.637													15	56	---	---	---	---	PASS
IRX2	153572	broad.mit.edu	37	5	2749174	2749174	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:2749174G>A	uc003jda.2	-						IRX2_uc003jdb.2_Intron	NM_001134222	NP_001127694	Q9BZI1	IRX2_HUMAN	iroquois homeobox 2							nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			skin(1)	1				GBM - Glioblastoma multiforme(108;0.204)		TCCCTGTGGGGGCGCGGGCAC	0.741													7	7	---	---	---	---	PASS
ADAMTS16	170690	broad.mit.edu	37	5	5242288	5242288	+	Silent	SNP	C	T	T	rs35767796		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:5242288C>T	uc003jdl.2	+	17	2784	c.2646C>T	c.(2644-2646)TCC>TCT	p.S882S	ADAMTS16_uc003jdk.1_Silent_p.S882S	NM_139056	NP_620687	Q8TE57	ATS16_HUMAN	ADAM metallopeptidase with thrombospondin type 1	882	TSP type-1 2.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(3)|lung(2)|large_intestine(1)|breast(1)|pancreas(1)	8						CTGAGTGCTCCGTGTCCTGCG	0.622													7	22	---	---	---	---	PASS
KIAA0947	23379	broad.mit.edu	37	5	5463364	5463364	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:5463364G>T	uc003jdm.3	+	13	4139	c.3917G>T	c.(3916-3918)CGG>CTG	p.R1306L		NM_015325	NP_056140	Q9Y2F5	K0947_HUMAN	hypothetical protein LOC23379	1306										ovary(1)|central_nervous_system(1)	2						AGTCCATTTCGGGAAACGACT	0.438													4	17	---	---	---	---	PASS
ADCY2	108	broad.mit.edu	37	5	7804718	7804718	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:7804718C>T	uc003jdz.1	+	22	2863	c.2796C>T	c.(2794-2796)TTC>TTT	p.F932F	ADCY2_uc011cmo.1_Silent_p.F752F|ADCY2_uc010itm.1_Silent_p.F128F	NM_020546	NP_065433	Q08462	ADCY2_HUMAN	adenylate cyclase 2	932	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|dendrite|integral to membrane|plasma membrane	ATP binding|metal ion binding			ovary(5)|pancreas(1)|skin(1)	7						AGCCAAAATTCAGTGGAGTTG	0.483													17	20	---	---	---	---	PASS
SEMA5A	9037	broad.mit.edu	37	5	9190533	9190533	+	Silent	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:9190533C>A	uc003jek.2	-	11	1831	c.1119G>T	c.(1117-1119)CTG>CTT	p.L373L		NM_003966	NP_003957	Q13591	SEM5A_HUMAN	semaphorin 5A precursor	373	Sema.|Extracellular (Potential).				cell adhesion|cell-cell signaling	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)	2						GAGCATCCTGCAGATTTCTCT	0.577													10	20	---	---	---	---	PASS
MARCH6	10299	broad.mit.edu	37	5	10400887	10400887	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:10400887C>T	uc003jet.1	+						MARCH6_uc011cmu.1_Intron|MARCH6_uc003jeu.1_Intron|MARCH6_uc011cmv.1_Intron	NM_005885	NP_005876	O60337	MARH6_HUMAN	membrane-associated ring finger (C3HC4) 6						protein K48-linked ubiquitination	integral to endoplasmic reticulum membrane	ubiquitin conjugating enzyme binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|breast(1)	2						ATTTTTTCCCCCTTTTTAGCA	0.269													8	15	---	---	---	---	PASS
MARCH6	10299	broad.mit.edu	37	5	10426588	10426588	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:10426588C>T	uc003jet.1	+	24	2643	c.2460C>T	c.(2458-2460)TCC>TCT	p.S820S	MARCH6_uc011cmu.1_Silent_p.S772S|MARCH6_uc003jeu.1_Silent_p.S518S|MARCH6_uc011cmv.1_Silent_p.S715S	NM_005885	NP_005876	O60337	MARH6_HUMAN	membrane-associated ring finger (C3HC4) 6	820	Helical; (Potential).				protein K48-linked ubiquitination	integral to endoplasmic reticulum membrane	ubiquitin conjugating enzyme binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(1)|breast(1)	2						TGTTGCTTTCCCTGTGTGTAC	0.433													25	58	---	---	---	---	PASS
CTNND2	1501	broad.mit.edu	37	5	11022941	11022941	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:11022941G>A	uc003jfa.1	-	17	3084	c.2939C>T	c.(2938-2940)GCC>GTC	p.A980V	CTNND2_uc010itt.2_Missense_Mutation_p.A889V|CTNND2_uc011cmy.1_Missense_Mutation_p.A643V|CTNND2_uc011cmz.1_Missense_Mutation_p.A547V|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Missense_Mutation_p.A572V	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	980	ARM 9.			A -> G (in Ref. 8; AAB97957).	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						ATCCCGTAAGGCCTTGGCGTT	0.507													14	43	---	---	---	---	PASS
CTNND2	1501	broad.mit.edu	37	5	11082931	11082931	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:11082931G>A	uc003jfa.1	-	16	2810	c.2665C>T	c.(2665-2667)CGA>TGA	p.R889*	CTNND2_uc010itt.2_Nonsense_Mutation_p.R798*|CTNND2_uc011cmy.1_Nonsense_Mutation_p.R552*|CTNND2_uc011cmz.1_Nonsense_Mutation_p.R456*|CTNND2_uc010itu.1_RNA|CTNND2_uc011cmx.1_Nonsense_Mutation_p.R481*	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	889	ARM 8.				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						TTCTCTTTTCGGACAGCGGCT	0.537													8	21	---	---	---	---	PASS
CTNND2	1501	broad.mit.edu	37	5	11411723	11411723	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:11411723C>T	uc003jfa.1	-	5	509	c.364G>A	c.(364-366)GAG>AAG	p.E122K	CTNND2_uc010itt.2_Missense_Mutation_p.E31K|CTNND2_uc011cmy.1_Missense_Mutation_p.E31K|CTNND2_uc011cmz.1_5'UTR|CTNND2_uc010itu.1_RNA	NM_001332	NP_001323	Q9UQB3	CTND2_HUMAN	catenin (cadherin-associated protein), delta 2	122					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						TCCACCAGCTCGAGACCTGTT	0.373													7	26	---	---	---	---	PASS
DNAH5	1767	broad.mit.edu	37	5	13737373	13737373	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:13737373C>T	uc003jfd.2	-	66	11485	c.11443G>A	c.(11443-11445)GAA>AAA	p.E3815K	DNAH5_uc003jfc.2_Intron	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3815	Potential.				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)					GGTCTGTATTCCTCCCGGGCT	0.428									Kartagener_syndrome				12	34	---	---	---	---	PASS
DNAH5	1767	broad.mit.edu	37	5	13752308	13752308	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:13752308C>T	uc003jfd.2	-	64	11005	c.10963G>A	c.(10963-10965)GAA>AAA	p.E3655K	DNAH5_uc003jfc.2_5'UTR	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	3655	AAA 5 (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)					GGATCTAGTTCCTCTCCAACA	0.398									Kartagener_syndrome				12	62	---	---	---	---	PASS
DNAH5	1767	broad.mit.edu	37	5	13820578	13820578	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:13820578G>T	uc003jfd.2	-	41	6760	c.6718C>A	c.(6718-6720)CCT>ACT	p.P2240T		NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	dynein, axonemal, heavy chain 5	2240	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)					AGTTTCCAAGGAGGATGGTTG	0.418									Kartagener_syndrome				13	25	---	---	---	---	PASS
DNAH5	1767	broad.mit.edu	37	5	13911603	13911603	+	Splice_Site	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:13911603C>T	uc003jfd.2	-	12	1579	c.1537_splice	c.e12-1	p.G513_splice	DNAH5_uc003jfe.1_Intron	NM_001369	NP_001360	Q8TE73	DYH5_HUMAN	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)					CCACAATGCCCTGAAATATTA	0.313									Kartagener_syndrome				10	29	---	---	---	---	PASS
TRIO	7204	broad.mit.edu	37	5	14286983	14286983	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:14286983G>A	uc003jff.2	+	4	357	c.351G>A	c.(349-351)GAG>GAA	p.E117E	TRIO_uc003jfg.2_RNA|TRIO_uc011cna.1_Silent_p.E68E	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	117	CRAL-TRIO.				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)					TCTGCAGCGAGGAGGTCTGCA	0.582													6	26	---	---	---	---	PASS
TRIO	7204	broad.mit.edu	37	5	14498737	14498737	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:14498737C>T	uc003jff.2	+	53	8326	c.8320C>T	c.(8320-8322)CTG>TTG	p.L2774L	TRIO_uc003jfg.2_RNA	NM_007118	NP_009049	O75962	TRIO_HUMAN	triple functional domain (PTPRF interacting)	2774	Ig-like C2-type.				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)					GTCGGCCAGCCTGAGGGTCCT	0.567													12	62	---	---	---	---	PASS
MARCH11	441061	broad.mit.edu	37	5	16177920	16177920	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:16177920C>T	uc003jfo.2	-	2	821	c.608G>A	c.(607-609)TGG>TAG	p.W203*	uc003jfp.2_5'Flank	NM_001102562	NP_001096032	A6NNE9	MARHB_HUMAN	membrane-associated ring finger (C3HC4) 11	203	RING-CH-type.					cytoplasmic vesicle membrane|integral to membrane	ligase activity|zinc ion binding				0						CTCACTGATCCATTTTAGCAG	0.433													21	58	---	---	---	---	PASS
ZNF622	90441	broad.mit.edu	37	5	16463280	16463280	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:16463280C>G	uc003jfq.2	-	3	1106	c.986G>C	c.(985-987)AGC>ACC	p.S329T		NM_033414	NP_219482	Q969S3	ZN622_HUMAN	zinc finger protein 622	329						cytoplasm|nucleus	nucleic acid binding|zinc ion binding			ovary(1)	1						CTTACAGTGGCTTTTGTCATT	0.423													6	149	---	---	---	---	PASS
PRDM9	56979	broad.mit.edu	37	5	23509708	23509708	+	Intron	SNP	A	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:23509708A>C	uc003jgo.2	+							NM_020227	NP_064612	Q9NQV7	PRDM9_HUMAN	PR domain containing 9						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						TATAGGTAACAGGAAGTGCTG	0.448										HNSCC(3;0.000094)			13	38	---	---	---	---	PASS
CDH10	1008	broad.mit.edu	37	5	24487843	24487843	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:24487843G>A	uc003jgr.1	-	12	2628	c.2296C>T	c.(2296-2298)CGA>TGA	p.R766*	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	766	Cytoplasmic (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)		CCCCATTCTCGGAGGTAATCG	0.413										HNSCC(23;0.051)			34	62	---	---	---	---	PASS
CDH10	1008	broad.mit.edu	37	5	24488000	24488000	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:24488000G>A	uc003jgr.1	-	12	2471	c.2139C>T	c.(2137-2139)TTC>TTT	p.F713F	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	713	Cytoplasmic (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)		TTTCATTAATGAAATCCCGGA	0.458										HNSCC(23;0.051)			9	39	---	---	---	---	PASS
CDH10	1008	broad.mit.edu	37	5	24511541	24511541	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:24511541C>T	uc003jgr.1	-	6	1229	c.897G>A	c.(895-897)GGG>GGA	p.G299G	CDH10_uc011cnu.1_RNA	NM_006727	NP_006718	Q9Y6N8	CAD10_HUMAN	cadherin 10, type 2 preproprotein	299	Cadherin 3.|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)		CAGCATTTTTCCCAGTGTCAG	0.423										HNSCC(23;0.051)			22	47	---	---	---	---	PASS
CDH9	1007	broad.mit.edu	37	5	26886136	26886136	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:26886136G>A	uc003jgs.1	-	10	1738	c.1569C>T	c.(1567-1569)TTC>TTT	p.F523F	CDH9_uc011cnv.1_Silent_p.F116F	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	523	Extracellular (Potential).|Cadherin 5.				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						GTTCAAAAAAGAATTTGTGAC	0.313													16	55	---	---	---	---	PASS
CDH9	1007	broad.mit.edu	37	5	26915832	26915832	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:26915832C>T	uc003jgs.1	-	3	598	c.429G>A	c.(427-429)TCG>TCA	p.S143S	CDH9_uc010iug.2_Silent_p.S143S	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	143	Extracellular (Potential).|Cadherin 1.				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						TGATAAATTCCGATTCCGGTT	0.398													24	81	---	---	---	---	PASS
CDH9	1007	broad.mit.edu	37	5	26988258	26988258	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:26988258G>A	uc003jgs.1	-	2	352	c.183C>T	c.(181-183)TTC>TTT	p.F61F	CDH9_uc010iug.2_Silent_p.F61F	NM_016279	NP_057363	Q9ULB4	CADH9_HUMAN	cadherin 9, type 2 preproprotein	61	Extracellular (Potential).|Cadherin 1.				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						CTTCCAATAAGAAGAACTGAT	0.378													7	16	---	---	---	---	PASS
RNASEN	29102	broad.mit.edu	37	5	31526644	31526644	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:31526644G>A	uc003jhg.2	-	4	755	c.396C>T	c.(394-396)GTC>GTT	p.V132V	RNASEN_uc003jhh.2_Silent_p.V132V|RNASEN_uc003jhi.2_Silent_p.V132V|RNASEN_uc010iui.1_Silent_p.V123V	NM_013235	NP_037367	Q9NRR4	RNC_HUMAN	ribonuclease III, nuclear isoform 1	132	Pro-rich.				gene silencing by RNA|ribosome biogenesis|RNA processing	nucleolus|nucleoplasm	double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity				0						GTGCCCCAGGGACTGGGGGGT	0.607													10	13	---	---	---	---	PASS
C5orf23	79614	broad.mit.edu	37	5	32789682	32789682	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:32789682C>T	uc003jhw.1	+	1	738	c.175C>T	c.(175-177)CTT>TTT	p.L59F		NM_024563	NP_078839			hypothetical protein LOC79614												0						TCTCCTTTCTCTTAAATTCAA	0.398													8	37	---	---	---	---	PASS
ADAMTS12	81792	broad.mit.edu	37	5	33576467	33576467	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:33576467G>A	uc003jia.1	-	19	3827	c.3664C>T	c.(3664-3666)CCC>TCC	p.P1222S	ADAMTS12_uc010iuq.1_Missense_Mutation_p.P1137S	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	1222	Spacer 2.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						CTTTGGCTGGGGAGCAGTCCT	0.552										HNSCC(64;0.19)			26	49	---	---	---	---	PASS
ADAMTS12	81792	broad.mit.edu	37	5	33649739	33649739	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:33649739G>A	uc003jia.1	-	8	1417	c.1254C>T	c.(1252-1254)ATC>ATT	p.I418I	ADAMTS12_uc010iuq.1_Silent_p.I418I	NM_030955	NP_112217	P58397	ATS12_HUMAN	ADAM metallopeptidase with thrombospondin type 1	418	Peptidase M12B.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(2)|upper_aerodigestive_tract(1)|lung(1)|kidney(1)	9						GGCGGGACATGATGTACGGAT	0.547										HNSCC(64;0.19)			27	34	---	---	---	---	PASS
AGXT2	64902	broad.mit.edu	37	5	35025919	35025919	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:35025919C>T	uc003jjf.2	-	9	991	c.912G>A	c.(910-912)AAG>AAA	p.K304K	AGXT2_uc003jje.1_5'UTR|AGXT2_uc011com.1_Silent_p.K304K	NM_031900	NP_114106	Q9BYV1	AGT2_HUMAN	alanine-glyoxylate aminotransferase 2 precursor	304					glyoxylate metabolic process|pyrimidine base metabolic process|pyrimidine nucleoside catabolic process	mitochondrial matrix	(R)-3-amino-2-methylpropionate-pyruvate transaminase activity|alanine-glyoxylate transaminase activity|pyridoxal phosphate binding			ovary(3)|skin(1)	4	all_lung(31;4.52e-05)		COAD - Colon adenocarcinoma(61;0.174)|Colorectal(62;0.229)	GBM - Glioblastoma multiforme(108;0.181)	Glycine(DB00145)|L-Alanine(DB00160)|Pyridoxal Phosphate(DB00114)|Pyruvic acid(DB00119)	CAAAGGCTTCCTTTAGAAACC	0.483													10	34	---	---	---	---	PASS
SPEF2	79925	broad.mit.edu	37	5	35641538	35641538	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:35641538C>T	uc003jjo.2	+	3	278	c.167C>T	c.(166-168)TCA>TTA	p.S56L	SPEF2_uc003jjn.1_Missense_Mutation_p.S56L|SPEF2_uc003jjq.3_Missense_Mutation_p.S56L	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	56	CH.				nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TCCAGGGTTTCAAGTGCCAAA	0.333													16	30	---	---	---	---	PASS
SPEF2	79925	broad.mit.edu	37	5	35644570	35644570	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:35644570G>T	uc003jjo.2	+	4	639	c.528G>T	c.(526-528)GAG>GAT	p.E176D	SPEF2_uc003jjn.1_Missense_Mutation_p.E176D|SPEF2_uc003jjq.3_Missense_Mutation_p.E176D	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	176					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity	p.E176G(1)		skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TGCATTTTGAGAAACTTGAAA	0.313													6	19	---	---	---	---	PASS
SPEF2	79925	broad.mit.edu	37	5	35704730	35704730	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:35704730G>A	uc003jjo.2	+	17	2584	c.2473G>A	c.(2473-2475)GGA>AGA	p.G825R	SPEF2_uc003jjq.3_Missense_Mutation_p.G820R|SPEF2_uc003jjp.1_Missense_Mutation_p.G311R	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	825					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			AGATAAGGATGGAGACCAAAA	0.318													14	44	---	---	---	---	PASS
SPEF2	79925	broad.mit.edu	37	5	35705851	35705851	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:35705851C>T	uc003jjo.2	+	18	2717	c.2606C>T	c.(2605-2607)TCT>TTT	p.S869F	SPEF2_uc003jjq.3_Missense_Mutation_p.S864F|SPEF2_uc003jjp.1_Missense_Mutation_p.S355F	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	869					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			GATAAGGAATCTTTATGTGAA	0.284													3	19	---	---	---	---	PASS
SPEF2	79925	broad.mit.edu	37	5	35806982	35806982	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:35806982C>T	uc003jjo.2	+	35	5295	c.5184C>T	c.(5182-5184)TTC>TTT	p.F1728F	SPEF2_uc003jjp.1_Silent_p.F1214F|SPEF2_uc003jjr.2_Silent_p.F783F	NM_024867	NP_079143	Q9C093	SPEF2_HUMAN	KPL2 protein isoform 1	1728					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|protein dimerization activity			skin(2)|ovary(1)|central_nervous_system(1)	4	all_lung(31;7.56e-05)		Lung(74;0.111)|COAD - Colon adenocarcinoma(61;0.14)|Colorectal(62;0.202)			TCAAAGTGTTCAAAGGGGGAA	0.378													15	32	---	---	---	---	PASS
C5orf42	65250	broad.mit.edu	37	5	37125368	37125368	+	Missense_Mutation	SNP	G	A	A	rs113008648		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:37125368G>A	uc011cpa.1	-	46	9005	c.8774C>T	c.(8773-8775)CCT>CTT	p.P2925L	C5orf42_uc003jkp.1_Intron|C5orf42_uc011coy.1_Missense_Mutation_p.P1443L|C5orf42_uc003jks.2_RNA|C5orf42_uc011coz.1_Missense_Mutation_p.P2018L	NM_023073	NP_075561	E9PH94	E9PH94_HUMAN	hypothetical protein LOC65250	2925										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)			GGGACAGAAAGGATCATGTTC	0.373													24	80	---	---	---	---	PASS
OSMR	9180	broad.mit.edu	37	5	38881757	38881757	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:38881757C>T	uc003jln.1	+	4	676	c.309C>T	c.(307-309)CTC>CTT	p.L103L	OSMR_uc003jlm.1_Silent_p.L103L	NM_003999	NP_003990	Q99650	OSMR_HUMAN	oncostatin M receptor precursor	103	Extracellular (Potential).				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)					AATCTGAGCTCCCTTTGGAAT	0.473													17	33	---	---	---	---	PASS
OSMR	9180	broad.mit.edu	37	5	38933461	38933461	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:38933461C>T	uc003jln.1	+	18	3222	c.2855C>T	c.(2854-2856)TCC>TTC	p.S952F	OSMR_uc011cpj.1_Missense_Mutation_p.S156F	NM_003999	NP_003990	Q99650	OSMR_HUMAN	oncostatin M receptor precursor	952	Cytoplasmic (Potential).				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)					ATGGCAGTCTCCCTGCGTCTT	0.507													23	57	---	---	---	---	PASS
FYB	2533	broad.mit.edu	37	5	39202038	39202038	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:39202038G>A	uc003jls.2	-	1	1092	c.1025C>T	c.(1024-1026)CCG>CTG	p.P342L	FYB_uc003jlt.2_Missense_Mutation_p.P342L|FYB_uc003jlu.2_Missense_Mutation_p.P342L|FYB_uc011cpl.1_Missense_Mutation_p.P352L	NM_199335	NP_955367	O15117	FYB_HUMAN	FYN binding protein (FYB-120/130) isoform 2	342					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)			CTTCTGTTTCGGGGTGGCTGA	0.532													12	39	---	---	---	---	PASS
FYB	2533	broad.mit.edu	37	5	39202362	39202362	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:39202362T>A	uc003jls.2	-	1	768	c.701A>T	c.(700-702)AAA>ATA	p.K234I	FYB_uc003jlt.2_Missense_Mutation_p.K234I|FYB_uc003jlu.2_Missense_Mutation_p.K234I|FYB_uc011cpl.1_Missense_Mutation_p.K244I	NM_199335	NP_955367	O15117	FYB_HUMAN	FYN binding protein (FYB-120/130) isoform 2	234					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)			AGGGCCGCTTTTGGACCTGAC	0.502													31	79	---	---	---	---	PASS
HEATR7B2	133558	broad.mit.edu	37	5	41004483	41004483	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:41004483C>T	uc003jmj.3	-	37	4649	c.4159G>A	c.(4159-4161)GAA>AAA	p.E1387K	HEATR7B2_uc003jmi.3_Missense_Mutation_p.E942K	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	1387	HEAT 15.						binding			ovary(6)|central_nervous_system(2)	8						AGCACTATTTCCTTGAAGTAG	0.458													34	84	---	---	---	---	PASS
HEATR7B2	133558	broad.mit.edu	37	5	41009458	41009458	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:41009458C>T	uc003jmj.3	-	32	3834	c.3344G>A	c.(3343-3345)GGG>GAG	p.G1115E	HEATR7B2_uc003jmi.3_Missense_Mutation_p.G670E	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	1115	HEAT 12.						binding			ovary(6)|central_nervous_system(2)	8						CAAGAGTTTCCCACTGGAGGC	0.507													12	60	---	---	---	---	PASS
HEATR7B2	133558	broad.mit.edu	37	5	41032873	41032873	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:41032873C>T	uc003jmj.3	-	24	2902	c.2412G>A	c.(2410-2412)TGG>TGA	p.W804*	HEATR7B2_uc003jmi.3_Nonsense_Mutation_p.W359*	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	804	HEAT 9.						binding			ovary(6)|central_nervous_system(2)	8						TTAAGGCTTTCCACCGAATAG	0.388													11	20	---	---	---	---	PASS
HEATR7B2	133558	broad.mit.edu	37	5	41048573	41048573	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:41048573G>A	uc003jmj.3	-						HEATR7B2_uc003jmi.3_Intron	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2								binding			ovary(6)|central_nervous_system(2)	8						ATTACCTGAAGGATAGAAGAG	0.423													7	19	---	---	---	---	PASS
HEATR7B2	133558	broad.mit.edu	37	5	41057416	41057416	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:41057416A>G	uc003jmj.3	-	8	1293	c.803T>C	c.(802-804)CTT>CCT	p.L268P	HEATR7B2_uc003jmi.3_Intron	NM_173489	NP_775760	Q7Z745	HTRB2_HUMAN	HEAT repeat family member 7B2	268							binding			ovary(6)|central_nervous_system(2)	8						GCTCCTTGGAAGGCCAATGTC	0.438													9	14	---	---	---	---	PASS
C6	729	broad.mit.edu	37	5	41149419	41149419	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:41149419C>T	uc003jmk.2	-	17	2757	c.2547G>A	c.(2545-2547)AGG>AGA	p.R849R	C6_uc003jml.1_Silent_p.R849R	NM_000065	NP_000056	P13671	CO6_HUMAN	complement component 6 precursor	849	C5b-binding domain.				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)				AAAGTCTTGTCCTTTCAAGAC	0.418													39	81	---	---	---	---	PASS
NNT	23530	broad.mit.edu	37	5	43650627	43650627	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:43650627C>T	uc003joe.2	+	12	1910	c.1655C>T	c.(1654-1656)CCT>CTT	p.P552L	NNT_uc003jof.2_Missense_Mutation_p.P552L	NM_012343	NP_036475	Q13423	NNTM_HUMAN	nicotinamide nucleotide transhydrogenase	552					tricarboxylic acid cycle	integral to membrane|mitochondrial respiratory chain	NAD binding|NAD(P)+ transhydrogenase (AB-specific) activity|NAD(P)+ transhydrogenase (B-specific) activity|NADP binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(6;2.58e-06)				NADH(DB00157)	CATTTGTATCCTTCCACAACT	0.438													10	28	---	---	---	---	PASS
FGF10	2255	broad.mit.edu	37	5	44310604	44310604	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:44310604G>A	uc003jog.1	-	2	354	c.354C>T	c.(352-354)ATC>ATT	p.I118I		NM_004465	NP_004456	O15520	FGF10_HUMAN	fibroblast growth factor 10 precursor	118					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)					CAACAACTCCGATTTCTACTG	0.333													7	13	---	---	---	---	PASS
HCN1	348980	broad.mit.edu	37	5	45267354	45267354	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:45267354C>T	uc003jok.2	-	7	1645	c.1620G>A	c.(1618-1620)GAG>GAA	p.E540E		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	540	cAMP.|Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						GCAGGCAAATCTCTATAAAAA	0.398													26	30	---	---	---	---	PASS
HCN1	348980	broad.mit.edu	37	5	45353276	45353276	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:45353276A>G	uc003jok.2	-	5	1328	c.1303T>C	c.(1303-1305)TAT>CAT	p.Y435H		NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic	435	Cytoplasmic (Potential).					integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						CTGTGTTCATAGTAATCATGT	0.343													9	22	---	---	---	---	PASS
SNX18	112574	broad.mit.edu	37	5	53815435	53815435	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:53815435G>A	uc003jpj.3	+	1	1843	c.1653G>A	c.(1651-1653)TGG>TGA	p.W551*	SNX18_uc011cqg.1_Nonsense_Mutation_p.W551*|SNX18_uc003jpi.3_Intron	NM_052870	NP_443102	Q96RF0	SNX18_HUMAN	sorting nexin 18 isoform b	551	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)				AGGTGATATGGAGTGTATTGT	0.512													12	52	---	---	---	---	PASS
CDC20B	166979	broad.mit.edu	37	5	54415739	54415739	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:54415739G>A	uc003jpo.1	-	11	1524	c.1349C>T	c.(1348-1350)TCC>TTC	p.S450F	CDC20B_uc003jpn.1_Missense_Mutation_p.S450F|CDC20B_uc010ivu.1_Missense_Mutation_p.S408F	NM_152623	NP_689836	Q86Y33	CD20B_HUMAN	CDC20 cell division cycle 20 homolog B isoform	450	WD 6.										0		Lung NSC(810;0.000744)|Breast(144;0.159)|Prostate(74;0.194)	LUSC - Lung squamous cell carcinoma(15;0.225)			CCAGATTAAGGAACAAATCTG	0.403													12	48	---	---	---	---	PASS
SLC38A9	153129	broad.mit.edu	37	5	54929713	54929713	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:54929713G>A	uc003jqf.2	-	14	1500	c.1299C>T	c.(1297-1299)TTC>TTT	p.F433F	SLC38A9_uc003jqd.2_Silent_p.F370F|SLC38A9_uc010ivx.2_Silent_p.F370F|SLC38A9_uc003jqe.2_Intron|SLC38A9_uc010ivy.2_Silent_p.F304F	NM_173514	NP_775785	Q8NBW4	S38A9_HUMAN	solute carrier family 38, member 9	433					amino acid transport|sodium ion transport	integral to membrane					0		Lung NSC(810;0.00122)|Prostate(74;0.0376)|Breast(144;0.181)				CACTGCTAGGGAAGTTGTCTA	0.388													16	16	---	---	---	---	PASS
GAPT	202309	broad.mit.edu	37	5	57790524	57790524	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:57790524G>A	uc003jro.1	+	3	555	c.161G>A	c.(160-162)AGA>AAA	p.R54K		NM_152687	NP_689900	Q8N292	GAPT_HUMAN	GRB2-binding adaptor protein, transmembrane	54					B cell activation	integral to membrane|plasma membrane					0						AGCAGCAGGAGAAAAGTCTGT	0.458													13	23	---	---	---	---	PASS
PDE4D	5144	broad.mit.edu	37	5	58270781	58270781	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:58270781G>A	uc003jsa.2	-	15	2312	c.2140C>T	c.(2140-2142)CAG>TAG	p.Q714*	PDE4D_uc003jrx.2_Nonsense_Mutation_p.Q578*|PDE4D_uc003jry.2_Nonsense_Mutation_p.Q412*|PDE4D_uc003jrz.2_Nonsense_Mutation_p.Q650*|PDE4D_uc003jsb.2_Nonsense_Mutation_p.Q653*|PDE4D_uc003jrt.2_Nonsense_Mutation_p.Q412*|PDE4D_uc003jru.2_Nonsense_Mutation_p.Q490*|PDE4D_uc003jrv.2_Nonsense_Mutation_p.Q584*|PDE4D_uc003jrw.2_Nonsense_Mutation_p.Q592*|PDE4D_uc003jrs.2_Nonsense_Mutation_p.Q423*	NM_001104631	NP_001098101	Q08499	PDE4D_HUMAN	phosphodiesterase 4D isoform 1	714					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)	GAGGGGCTCTGAGGGATTGTG	0.537													22	32	---	---	---	---	PASS
IPO11	51194	broad.mit.edu	37	5	61783631	61783631	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:61783631C>T	uc003jtc.2	+	13	1442	c.1252C>T	c.(1252-1254)CAT>TAT	p.H418Y	IPO11_uc011cqr.1_Missense_Mutation_p.H458Y|IPO11_uc003jtb.1_Missense_Mutation_p.H418Y	NM_016338	NP_057422	Q9UI26	IPO11_HUMAN	Ran binding protein 11 isoform 2	418						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)		AGATATATTCCATGAATATAA	0.299													7	29	---	---	---	---	PASS
HTR1A	3350	broad.mit.edu	37	5	63257364	63257364	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:63257364G>A	uc011cqt.1	-	1	183	c.183C>T	c.(181-183)ATC>ATT	p.I61I		NM_000524	NP_000515	P08908	5HT1A_HUMAN	5-hydroxytryptamine (serotonin) receptor 1A	61	Helical; Name=1; (By similarity).				behavior|positive regulation of cell proliferation	integral to plasma membrane	serotonin receptor activity			ovary(2)|pancreas(2)	4		Lung NSC(810;3.55e-06)|Prostate(74;0.0352)|Ovarian(174;0.0545)|Breast(144;0.0575)|Colorectal(97;0.234)		Lung(70;0.105)	Alprenolol(DB00866)|Aripiprazole(DB01238)|Buspirone(DB00490)|Clozapine(DB00363)|Eletriptan(DB00216)|Ergoloid mesylate(DB01049)|Fluvoxamine(DB00176)|Lisuride(DB00589)|Methysergide(DB00247)|Mirtazapine(DB00370)|Pindolol(DB00960)|Propranolol(DB00571)|Quetiapine(DB01224)|Sertraline(DB01104)|Tegaserod(DB01079)|Trazodone(DB00656)|Venlafaxine(DB00285)|Ziprasidone(DB00246)	GCTCCAAGGCGATGGCAGCCA	0.617													12	12	---	---	---	---	PASS
RGS7BP	401190	broad.mit.edu	37	5	63905037	63905037	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:63905037G>A	uc003jtj.2	+	6	732	c.732G>A	c.(730-732)CGG>CGA	p.R244R	RGS7BP_uc011cqu.1_Silent_p.R111R	NM_001029875	NP_001025046	Q6MZT1	R7BP_HUMAN	regulator of G-protein signaling 7 binding	244	Nuclear localization signal (By similarity).				negative regulation of signal transduction	cytoplasm|nucleus|plasma membrane					0		Lung NSC(810;0.000518)|Prostate(74;0.0435)|Ovarian(174;0.186)		Lung(70;0.147)		TGAGAAGACGGAAGAGAAGGT	0.473													19	29	---	---	---	---	PASS
CWC27	10283	broad.mit.edu	37	5	64082381	64082381	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:64082381C>T	uc003jtn.1	+	6	745	c.526C>T	c.(526-528)CCA>TCA	p.P176S	CWC27_uc003jtl.2_Missense_Mutation_p.P176S|CWC27_uc003jtm.2_Missense_Mutation_p.P176S|CWC27_uc010iwt.1_Missense_Mutation_p.P176S	NM_005869	NP_005860	Q6UX04	CWC27_HUMAN	serologically defined colon cancer antigen 10	176					protein folding	catalytic step 2 spliceosome	peptidyl-prolyl cis-trans isomerase activity				0						TGACATCATTCCAAGGGAAAT	0.308													11	12	---	---	---	---	PASS
ADAMTS6	11174	broad.mit.edu	37	5	64769451	64769451	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:64769451G>A	uc003jtp.2	-	2	864	c.50C>T	c.(49-51)GCT>GTT	p.A17V	ADAMTS6_uc003jto.2_RNA|ADAMTS6_uc003jtq.2_RNA|ADAMTS6_uc003jtr.1_5'UTR	NM_197941	NP_922932	Q9UKP5	ATS6_HUMAN	ADAM metallopeptidase with thrombospondin type 1	17					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)		TTCCGATGAAGCCATGATGAG	0.368													39	107	---	---	---	---	PASS
ERBB2IP	55914	broad.mit.edu	37	5	65344484	65344484	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:65344484C>T	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|ERBB2IP_uc010iwx.1_Intron|ERBB2IP_uc003jul.1_Intron	NM_018695	NP_061165	Q96RT1	LAP2_HUMAN	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)		CCCTCACCCCCTTTTCACTAG	0.299													8	15	---	---	---	---	PASS
MAST4	375449	broad.mit.edu	37	5	66396421	66396421	+	Splice_Site	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:66396421G>A	uc003jut.1	+	7	571	c.503_splice	c.e7+1	p.S168_splice	MAST4_uc003jus.2_Splice_Site_p.S168_splice|MAST4_uc003juu.1_Splice_Site_p.S178_splice|MAST4_uc011cra.1_Splice_Site_p.S151_splice|MAST4_uc010ixa.2_Splice_Site|MAST4_uc003juv.2_Splice_Site_p.S163_splice|MAST4_uc003juw.2_Splice_Site_p.S163_splice	NM_015183	NP_055998	O15021	MAST4_HUMAN	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)		GAAGTCTGAGGTGTGTGGGCC	0.453													12	26	---	---	---	---	PASS
MAST4	375449	broad.mit.edu	37	5	66462794	66462794	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:66462794C>T	uc003jut.1	+	28	7288	c.7220C>T	c.(7219-7221)TCT>TTT	p.S2407F	MAST4_uc003juw.2_Missense_Mutation_p.S2335F|MAST4_uc003jux.2_Missense_Mutation_p.S160F	NM_015183	NP_055998	O15021	MAST4_HUMAN	microtubule associated serine/threonine kinase	2599						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)		CGCCCCATCTCTCTTTCTAAT	0.597													6	13	---	---	---	---	PASS
CENPH	64946	broad.mit.edu	37	5	68498782	68498782	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:68498782A>G	uc003jvp.2	+	7	559	c.472A>G	c.(472-474)AGA>GGA	p.R158G	CENPH_uc010ixc.2_Missense_Mutation_p.R139G	NM_022909	NP_075060	Q9H3R5	CENPH_HUMAN	centromere protein H	158	Potential.				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)		GCTTGATATTAGAAAGAAGAG	0.313													3	16	---	---	---	---	PASS
MAP1B	4131	broad.mit.edu	37	5	71494703	71494703	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:71494703A>T	uc003kbw.3	+	5	5762	c.5521A>T	c.(5521-5523)ATG>TTG	p.M1841L	MAP1B_uc010iyw.1_Missense_Mutation_p.M1858L|MAP1B_uc010iyx.1_Missense_Mutation_p.M1715L|MAP1B_uc010iyy.1_Missense_Mutation_p.M1715L	NM_005909	NP_005900	P46821	MAP1B_HUMAN	microtubule-associated protein 1B	1841						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)		ATTCGATACAATGCAACACCA	0.483													9	38	---	---	---	---	PASS
PTCD2	79810	broad.mit.edu	37	5	71654257	71654257	+	3'UTR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:71654257C>T	uc003kcb.2	+	10					PTCD2_uc011csf.1_3'UTR|PTCD2_uc003kcc.2_3'UTR|PTCD2_uc011csg.1_3'UTR|PTCD2_uc011csh.1_3'UTR|PTCD2_uc003kcd.2_RNA	NM_024754	NP_079030	Q8WV60	PTCD2_HUMAN	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)		CTGAGTAACCCTGGTTTCAGT	0.527													4	2	---	---	---	---	PASS
RGNEF	64283	broad.mit.edu	37	5	73045652	73045652	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:73045652C>T	uc011csq.1	+						RGNEF_uc003kcx.2_Intron|RGNEF_uc003kcy.1_Intron|RGNEF_uc010izf.2_Intron	NM_001080479	NP_001073948	Q8N1W1	RGNEF_HUMAN	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)		CCGACTTATTCCTTTTTCAGG	0.413													25	50	---	---	---	---	PASS
RGNEF	64283	broad.mit.edu	37	5	73069772	73069772	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:73069772C>T	uc011csq.1	+	4	579	c.568C>T	c.(568-570)CAG>TAG	p.Q190*	RGNEF_uc003kcx.2_Nonsense_Mutation_p.Q190*|RGNEF_uc003kcy.1_Nonsense_Mutation_p.Q190*|RGNEF_uc010izf.2_Nonsense_Mutation_p.Q190*	NM_001080479	NP_001073948	Q8N1W1	RGNEF_HUMAN	Rho-guanine nucleotide exchange factor	190					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)		GGGGGGAGTCCAGGCCTTGGC	0.502													3	12	---	---	---	---	PASS
ENC1	8507	broad.mit.edu	37	5	73932188	73932188	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:73932188C>T	uc003kdc.3	-	2	1254	c.123G>A	c.(121-123)CAG>CAA	p.Q41Q	ENC1_uc011css.1_Splice_Site	NM_003633	NP_003624	O14682	ENC1_HUMAN	ectodermal-neural cortex (with BTB-like domain)	41					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)		AGAGACGCTGCTGGCGTAAAA	0.557													9	33	---	---	---	---	PASS
IQGAP2	10788	broad.mit.edu	37	5	75964510	75964510	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:75964510A>G	uc003kek.2	+	23	2906	c.2684A>G	c.(2683-2685)AAC>AGC	p.N895S	IQGAP2_uc010izv.2_Missense_Mutation_p.N448S|IQGAP2_uc011csv.1_Missense_Mutation_p.N391S|IQGAP2_uc003kel.2_Missense_Mutation_p.N391S	NM_006633	NP_006624	Q13576	IQGA2_HUMAN	IQ motif containing GTPase activating protein 2	895					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)		TTCTAGACCAACCCTTTATAC	0.323													8	14	---	---	---	---	PASS
CRHBP	1393	broad.mit.edu	37	5	76264654	76264654	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:76264654G>A	uc003ker.2	+	7	1193	c.913G>A	c.(913-915)GAG>AAG	p.E305K		NM_001882	NP_001873	P24387	CRHBP_HUMAN	corticotropin releasing hormone binding protein	305					female pregnancy|learning or memory|signal transduction	soluble fraction					0		all_lung(232;0.000414)|Lung NSC(167;0.0011)|Ovarian(174;0.0129)|Prostate(461;0.11)		OV - Ovarian serous cystadenocarcinoma(54;2.17e-51)|Epithelial(54;8.79e-46)|all cancers(79;2.49e-41)		GGAGCCGTACGAGCTGGAAAA	0.453													17	29	---	---	---	---	PASS
CMYA5	202333	broad.mit.edu	37	5	79029528	79029528	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:79029528G>A	uc003kgc.2	+	2	5012	c.4940G>A	c.(4939-4941)AGA>AAA	p.R1647K		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	1647						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		GATTTAGGTAGACAAAGTGGA	0.433													15	66	---	---	---	---	PASS
CMYA5	202333	broad.mit.edu	37	5	79029588	79029588	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:79029588C>T	uc003kgc.2	+	2	5072	c.5000C>T	c.(4999-5001)TCT>TTT	p.S1667F		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	1667						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		ACAGAGGATTCTGTTTTAGAA	0.403													11	53	---	---	---	---	PASS
CMYA5	202333	broad.mit.edu	37	5	79029791	79029791	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:79029791G>A	uc003kgc.2	+	2	5275	c.5203G>A	c.(5203-5205)GGA>AGA	p.G1735R		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	1735						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		TGTAGCTGAAGGAGGCAACCC	0.418													8	56	---	---	---	---	PASS
CMYA5	202333	broad.mit.edu	37	5	79034258	79034258	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:79034258C>T	uc003kgc.2	+	2	9742	c.9670C>T	c.(9670-9672)CCC>TCC	p.P3224S		NM_153610	NP_705838	Q8N3K9	CMYA5_HUMAN	cardiomyopathy associated 5	3224						perinuclear region of cytoplasm				ovary(6)|pancreas(2)|lung(1)	9		Lung NSC(167;0.00296)|all_lung(232;0.00327)|Ovarian(174;0.0262)		OV - Ovarian serous cystadenocarcinoma(54;9.85e-46)|Epithelial(54;3.38e-40)|all cancers(79;3.43e-35)		GGCATCATTTCCCAGCAGAAA	0.378													12	28	---	---	---	---	PASS
SPZ1	84654	broad.mit.edu	37	5	79616862	79616862	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:79616862A>T	uc003kgn.2	+	1	1073	c.828A>T	c.(826-828)AAA>AAT	p.K276N	uc011ctk.1_RNA	NM_032567	NP_115956	Q9BXG8	SPZ1_HUMAN	spermatogenic leucine zipper 1	276					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(1)	1		Lung NSC(167;0.0393)|all_lung(232;0.0428)|Ovarian(174;0.113)		OV - Ovarian serous cystadenocarcinoma(54;3.43e-47)|Epithelial(54;2.25e-41)|all cancers(79;4.19e-36)		AATCTCAGAAAGACATAAGTG	0.408													27	48	---	---	---	---	PASS
SPZ1	84654	broad.mit.edu	37	5	79616863	79616863	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:79616863G>A	uc003kgn.2	+	1	1074	c.829G>A	c.(829-831)GAC>AAC	p.D277N	uc011ctk.1_RNA	NM_032567	NP_115956	Q9BXG8	SPZ1_HUMAN	spermatogenic leucine zipper 1	277					regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(1)	1		Lung NSC(167;0.0393)|all_lung(232;0.0428)|Ovarian(174;0.113)		OV - Ovarian serous cystadenocarcinoma(54;3.43e-47)|Epithelial(54;2.25e-41)|all cancers(79;4.19e-36)		ATCTCAGAAAGACATAAGTGA	0.408													27	48	---	---	---	---	PASS
RASGRF2	5924	broad.mit.edu	37	5	80476040	80476040	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:80476040G>A	uc003kha.1	+	18	2733	c.2733G>A	c.(2731-2733)CGG>CGA	p.R911R	RASGRF2_uc011ctn.1_RNA	NM_006909	NP_008840	O14827	RGRF2_HUMAN	Ras protein-specific guanine	911					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)		TTATTATACGGAGAACGGCTA	0.443													48	69	---	---	---	---	PASS
VCAN	1462	broad.mit.edu	37	5	82815510	82815510	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:82815510G>A	uc003kii.3	+	7	1741	c.1385G>A	c.(1384-1386)AGT>AAT	p.S462N	VCAN_uc003kij.3_Intron|VCAN_uc010jau.2_Missense_Mutation_p.S462N|VCAN_uc003kik.3_Intron	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	462	GAG-alpha (glucosaminoglycan attachment domain).				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		GTGCTCCAGAGTACAACTGGC	0.433													15	53	---	---	---	---	PASS
VCAN	1462	broad.mit.edu	37	5	82837997	82837997	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:82837997C>T	uc003kii.3	+	8	9531	c.9175C>T	c.(9175-9177)CCA>TCA	p.P3059S	VCAN_uc003kij.3_Missense_Mutation_p.P2072S|VCAN_uc010jau.2_Intron|VCAN_uc003kik.3_Intron|VCAN_uc003kil.3_Missense_Mutation_p.P1723S	NM_004385	NP_004376	P13611	CSPG2_HUMAN	versican isoform 1 precursor	3059	GAG-beta.				cell adhesion|cell recognition|glial cell migration	extracellular space|proteinaceous extracellular matrix	calcium ion binding|hyaluronic acid binding|sugar binding			ovary(7)|skin(6)|lung(2)|central_nervous_system(1)	16		Lung NSC(167;0.0216)|all_lung(232;0.0251)|Ovarian(174;0.142)		OV - Ovarian serous cystadenocarcinoma(54;2.47e-41)|Epithelial(54;2.51e-34)|all cancers(79;5.19e-29)		TGCAACACCACCATTTTCCCT	0.428													20	51	---	---	---	---	PASS
MEF2C	4208	broad.mit.edu	37	5	88018477	88018477	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:88018477C>T	uc003kjj.2	-	11	2039	c.1366G>A	c.(1366-1368)GAA>AAA	p.E456K	MEF2C_uc003kji.2_Missense_Mutation_p.E448K|MEF2C_uc003kjk.2_Missense_Mutation_p.E456K|MEF2C_uc003kjm.2_Missense_Mutation_p.E446K|MEF2C_uc003kjl.2_Missense_Mutation_p.E466K	NM_002397	NP_002388	Q06413	MEF2C_HUMAN	myocyte enhancer factor 2C isoform 1	456					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)		CTTTCCCTTTCGTCCGGCGAA	0.498										HNSCC(66;0.2)			26	116	---	---	---	---	PASS
GPR98	84059	broad.mit.edu	37	5	89971257	89971257	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:89971257T>C	uc003kju.2	+	24	5404	c.5308T>C	c.(5308-5310)TAC>CAC	p.Y1770H	GPR98_uc003kjt.2_5'UTR|GPR98_uc010jba.1_RNA	NM_032119	NP_115495	Q8WXG9	GPR98_HUMAN	G protein-coupled receptor 98 precursor	1770	Extracellular (Potential).|Calx-beta 12.				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)		TCCTGAGGATTACCAGGTAAT	0.423													6	15	---	---	---	---	PASS
FAM81B	153643	broad.mit.edu	37	5	94727108	94727108	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:94727108C>T	uc003kla.1	+	1	61	c.15C>T	c.(13-15)TTC>TTT	p.F5F	FAM81B_uc010jbe.1_5'Flank	NM_152548	NP_689761	Q96LP2	FA81B_HUMAN	hypothetical protein LOC153643	5										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)		AATTACAATTCCTTGGTACAT	0.378													29	54	---	---	---	---	PASS
ERAP2	64167	broad.mit.edu	37	5	96215571	96215571	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:96215571G>A	uc003kmq.2	+	2	892	c.182G>A	c.(181-183)CGA>CAA	p.R61Q	uc003kmo.1_Intron|ERAP2_uc003kmt.2_Missense_Mutation_p.R61Q|ERAP2_uc003kmr.2_RNA|ERAP2_uc003kms.2_Missense_Mutation_p.R55Q|ERAP2_uc003kmu.2_RNA	NM_022350	NP_071745	Q6P179	ERAP2_HUMAN	endoplasmic reticulum aminopeptidase 2	61	Lumenal (Potential).				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)		AATGGGGAACGATTTCCTTGG	0.488													6	17	---	---	---	---	PASS
SLCO6A1	133482	broad.mit.edu	37	5	101735366	101735366	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:101735366C>T	uc003knn.2	-	10	1879	c.1707G>A	c.(1705-1707)GGG>GGA	p.G569G	SLCO6A1_uc003kno.2_Silent_p.G316G|SLCO6A1_uc003knp.2_Silent_p.G569G|SLCO6A1_uc003knq.2_Silent_p.G507G	NM_173488	NP_775759	Q86UG4	SO6A1_HUMAN	solute carrier organic anion transporter family,	569	Extracellular (Potential).					integral to membrane|plasma membrane	transporter activity			ovary(3)|skin(3)|central_nervous_system(1)	7		all_cancers(142;8e-09)|all_epithelial(76;2.83e-12)|Prostate(80;0.00125)|Colorectal(57;0.00342)|Ovarian(225;0.024)|Lung NSC(167;0.0259)|all_lung(232;0.0323)		Epithelial(69;1.47e-15)|COAD - Colon adenocarcinoma(37;0.0113)		CATCACATTTCCCGGGTCTGG	0.368													13	50	---	---	---	---	PASS
SLCO6A1	133482	broad.mit.edu	37	5	101748834	101748834	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:101748834C>T	uc003knn.2	-	9	1658	c.1486G>A	c.(1486-1488)GGA>AGA	p.G496R	SLCO6A1_uc003kno.2_Missense_Mutation_p.G243R|SLCO6A1_uc003knp.2_Missense_Mutation_p.G496R|SLCO6A1_uc003knq.2_Missense_Mutation_p.G434R	NM_173488	NP_775759	Q86UG4	SO6A1_HUMAN	solute carrier organic anion transporter family,	496	Extracellular (Potential).|Kazal-like.					integral to membrane|plasma membrane	transporter activity			ovary(3)|skin(3)|central_nervous_system(1)	7		all_cancers(142;8e-09)|all_epithelial(76;2.83e-12)|Prostate(80;0.00125)|Colorectal(57;0.00342)|Ovarian(225;0.024)|Lung NSC(167;0.0259)|all_lung(232;0.0323)		Epithelial(69;1.47e-15)|COAD - Colon adenocarcinoma(37;0.0113)		GTGAGGTTTCCCAACTTCCCT	0.318													4	34	---	---	---	---	PASS
SLC25A46	91137	broad.mit.edu	37	5	110096975	110096975	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:110096975G>A	uc003koz.2	+	8	817	c.750G>A	c.(748-750)ATG>ATA	p.M250I	SLC25A46_uc011cvi.1_Missense_Mutation_p.M159I	NM_138773	NP_620128	Q96AG3	S2546_HUMAN	solute carrier family 25, member 46	250					transport	integral to membrane|mitochondrial inner membrane					0		all_cancers(142;0.00203)|all_epithelial(76;4.52e-05)|Prostate(80;0.0115)|Colorectal(57;0.0676)|Ovarian(225;0.156)		OV - Ovarian serous cystadenocarcinoma(64;2.58e-09)|Epithelial(69;7.29e-08)|all cancers(49;9.35e-06)|COAD - Colon adenocarcinoma(37;0.211)		TGATAGGCATGGGAGTGCCTC	0.383													12	78	---	---	---	---	PASS
SLC25A46	91137	broad.mit.edu	37	5	110096976	110096976	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:110096976G>A	uc003koz.2	+	8	818	c.751G>A	c.(751-753)GGA>AGA	p.G251R	SLC25A46_uc011cvi.1_Missense_Mutation_p.G160R	NM_138773	NP_620128	Q96AG3	S2546_HUMAN	solute carrier family 25, member 46	251					transport	integral to membrane|mitochondrial inner membrane					0		all_cancers(142;0.00203)|all_epithelial(76;4.52e-05)|Prostate(80;0.0115)|Colorectal(57;0.0676)|Ovarian(225;0.156)		OV - Ovarian serous cystadenocarcinoma(64;2.58e-09)|Epithelial(69;7.29e-08)|all cancers(49;9.35e-06)|COAD - Colon adenocarcinoma(37;0.211)		GATAGGCATGGGAGTGCCTCA	0.383													11	78	---	---	---	---	PASS
WDR36	134430	broad.mit.edu	37	5	110428113	110428113	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:110428113C>T	uc003kpd.2	+	1	244	c.127C>T	c.(127-129)CCT>TCT	p.P43S	WDR36_uc010jbu.2_RNA	NM_139281	NP_644810	Q8NI36	WDR36_HUMAN	WD repeat domain 36	43					response to stimulus|rRNA processing|visual perception	small-subunit processome				ovary(1)|skin(1)	2		all_cancers(142;2.72e-05)|all_epithelial(76;4.4e-07)|Prostate(80;0.00955)|Lung NSC(167;0.0418)|Ovarian(225;0.0443)|Colorectal(57;0.0465)|all_lung(232;0.0508)|Breast(839;0.244)		OV - Ovarian serous cystadenocarcinoma(64;1.39e-08)|Epithelial(69;1.82e-07)|all cancers(49;2.04e-05)|COAD - Colon adenocarcinoma(37;0.111)		TACGTGTTTTCCTTCAGGACC	0.627													12	28	---	---	---	---	PASS
EPB41L4A	64097	broad.mit.edu	37	5	111504718	111504718	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:111504718C>T	uc003kpv.1	-	21	2098	c.1824G>A	c.(1822-1824)GGG>GGA	p.G608G	EPB41L4A_uc003kpp.1_Silent_p.G235G|EPB41L4A_uc003kpu.1_RNA	NM_022140	NP_071423	Q9HCS5	E41LA_HUMAN	erythrocyte protein band 4.1-like 4	608						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)		CTGATCGCTCCCCATCTGAAC	0.453													18	51	---	---	---	---	PASS
EPB41L4A	64097	broad.mit.edu	37	5	111598199	111598199	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:111598199G>A	uc003kpv.1	-	7	908	c.634C>T	c.(634-636)CCC>TCC	p.P212S		NM_022140	NP_071423	Q9HCS5	E41LA_HUMAN	erythrocyte protein band 4.1-like 4	212	FERM.					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)		ACATAGACGGGATGGAGGTCA	0.423													36	44	---	---	---	---	PASS
KCNN2	3781	broad.mit.edu	37	5	113798813	113798813	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:113798813C>T	uc003kqo.2	+	4	1526	c.1069C>T	c.(1069-1071)CTC>TTC	p.L357F	KCNN2_uc003kqp.2_Missense_Mutation_p.L9F|KCNN2_uc010jcg.2_RNA|uc003kqq.1_Intron	NM_021614	NP_067627	Q9H2S1	KCNN2_HUMAN	small conductance calcium-activated potassium	357						integral to membrane	calmodulin binding|small conductance calcium-activated potassium channel activity			ovary(2)	2		all_cancers(142;2.86e-05)|all_epithelial(76;9.33e-06)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Breast(839;0.159)|Lung NSC(810;0.174)|all_lung(232;0.206)		OV - Ovarian serous cystadenocarcinoma(64;1.89e-08)|Epithelial(69;2.04e-08)|all cancers(49;3.74e-06)|COAD - Colon adenocarcinoma(37;0.142)|Colorectal(14;0.195)		AATAACTTTTCTCTCCATTGG	0.383													42	57	---	---	---	---	PASS
KCNN2	3781	broad.mit.edu	37	5	113822850	113822850	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:113822850G>A	uc003kqo.2	+	6	1815	c.1358G>A	c.(1357-1359)CGA>CAA	p.R453Q	KCNN2_uc003kqp.2_Missense_Mutation_p.R105Q|KCNN2_uc010jcg.2_RNA|uc003kqr.1_Intron	NM_021614	NP_067627	Q9H2S1	KCNN2_HUMAN	small conductance calcium-activated potassium	453	Calmodulin-binding (By similarity).					integral to membrane	calmodulin binding|small conductance calcium-activated potassium channel activity			ovary(2)	2		all_cancers(142;2.86e-05)|all_epithelial(76;9.33e-06)|Prostate(80;0.00955)|Ovarian(225;0.0444)|Breast(839;0.159)|Lung NSC(810;0.174)|all_lung(232;0.206)		OV - Ovarian serous cystadenocarcinoma(64;1.89e-08)|Epithelial(69;2.04e-08)|all cancers(49;3.74e-06)|COAD - Colon adenocarcinoma(37;0.142)|Colorectal(14;0.195)		AAACATCAACGAAAATTCCTG	0.323													21	30	---	---	---	---	PASS
TRIM36	55521	broad.mit.edu	37	5	114499374	114499374	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:114499374G>A	uc003kqs.2	-	2	648	c.139C>T	c.(139-141)CCT>TCT	p.P47S	TRIM36_uc011cwc.1_Missense_Mutation_p.P35S|TRIM36_uc003kqt.2_Intron	NM_018700	NP_061170	Q9NQ86	TRI36_HUMAN	tripartite motif-containing 36 isoform 1	47	RING-type; degenerate.					acrosomal vesicle|cytoskeleton	ligase activity|zinc ion binding			ovary(4)|lung(2)|breast(2)	8		all_cancers(142;0.00133)|all_epithelial(76;2.41e-05)|Prostate(80;0.00955)|Ovarian(225;0.0443)|Breast(839;0.195)		OV - Ovarian serous cystadenocarcinoma(64;3.62e-08)|Epithelial(69;7.69e-08)|all cancers(49;9.33e-06)		TGTTGGCAAGGGAGAATCAAT	0.418													12	38	---	---	---	---	PASS
SEMA6A	57556	broad.mit.edu	37	5	115824669	115824669	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:115824669G>A	uc010jck.2	-	8	1279	c.570C>T	c.(568-570)TTC>TTT	p.F190F	SEMA6A_uc003krx.3_Silent_p.F190F	NM_020796	NP_065847	Q9H2E6	SEM6A_HUMAN	sema domain, transmembrane domain (TM), and	190	Sema.|Extracellular (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)		CAATGGCAAGGAAGTCAGTCA	0.453													3	0	---	---	---	---	PASS
DMXL1	1657	broad.mit.edu	37	5	118513065	118513065	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:118513065A>G	uc003ksd.2	+	27	6953	c.6772A>G	c.(6772-6774)AAT>GAT	p.N2258D	DMXL1_uc010jcl.1_Missense_Mutation_p.N2258D	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	2258										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)		ATTTCAGACGAATCAGTTTAC	0.294													7	19	---	---	---	---	PASS
DMXL1	1657	broad.mit.edu	37	5	118533536	118533536	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:118533536C>T	uc003ksd.2	+	32	7811	c.7630C>T	c.(7630-7632)CAT>TAT	p.H2544Y	DMXL1_uc010jcl.1_Missense_Mutation_p.H2544Y	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	2544										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)		ACTTGAAATCCATGGTGGGCC	0.448													17	64	---	---	---	---	PASS
TNFAIP8	25816	broad.mit.edu	37	5	118728999	118728999	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:118728999C>T	uc003ksh.2	+	3	1208	c.520C>T	c.(520-522)CCT>TCT	p.P174S	TNFAIP8_uc003ksf.1_3'UTR|TNFAIP8_uc003ksg.2_Missense_Mutation_p.P164S|TNFAIP8_uc011cwf.1_Missense_Mutation_p.P168S|TNFAIP8_uc003ksi.2_Missense_Mutation_p.P174S	NM_014350	NP_055165	O95379	TFIP8_HUMAN	tumor necrosis factor, alpha-induced protein 8	174					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)		CTTGTATAATCCTTTTGGGAA	0.373													39	65	---	---	---	---	PASS
PRR16	51334	broad.mit.edu	37	5	120021637	120021637	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:120021637C>T	uc003ksq.2	+						PRR16_uc003ksp.2_Intron|PRR16_uc003ksr.2_Intron	NM_016644	NP_057728	Q569H4	PRR16_HUMAN	proline rich 16											pancreas(2)|ovary(1)	3		all_cancers(142;0.0464)|Prostate(80;0.00446)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.000126)|Epithelial(69;0.000331)|all cancers(49;0.00169)		ATTACCTTGTCCTTTCCACTA	0.418													15	38	---	---	---	---	PASS
PRR16	51334	broad.mit.edu	37	5	120022157	120022157	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:120022157G>A	uc003ksq.2	+	2	831	c.668G>A	c.(667-669)CGG>CAG	p.R223Q	PRR16_uc003ksp.2_Missense_Mutation_p.R200Q|PRR16_uc003ksr.2_Missense_Mutation_p.R153Q	NM_016644	NP_057728	Q569H4	PRR16_HUMAN	proline rich 16	223	Pro-rich.									pancreas(2)|ovary(1)	3		all_cancers(142;0.0464)|Prostate(80;0.00446)	KIRC - Kidney renal clear cell carcinoma(527;0.159)|Kidney(363;0.221)	OV - Ovarian serous cystadenocarcinoma(64;0.000126)|Epithelial(69;0.000331)|all cancers(49;0.00169)		TGTGATACCCGGTATAACATA	0.507													8	34	---	---	---	---	PASS
FTMT	94033	broad.mit.edu	37	5	121187651	121187651	+	5'UTR	SNP	G	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:121187651G>C	uc003kss.2	+	1						NM_177478	NP_803431	Q8N4E7	FTMT_HUMAN	ferritin mitochondrial precursor						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)		TTCCAAGGAGGCGGCGCTATG	0.672													10	25	---	---	---	---	PASS
FTMT	94033	broad.mit.edu	37	5	121187993	121187993	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:121187993C>T	uc003kss.2	+	1	344	c.335C>T	c.(334-336)TCC>TTC	p.S112F		NM_177478	NP_803431	Q8N4E7	FTMT_HUMAN	ferritin mitochondrial precursor	112	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)		AACAACTTCTCCAGGTATTTC	0.582													10	14	---	---	---	---	PASS
FTMT	94033	broad.mit.edu	37	5	121187994	121187994	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:121187994C>T	uc003kss.2	+	1	345	c.336C>T	c.(334-336)TCC>TCT	p.S112S		NM_177478	NP_803431	Q8N4E7	FTMT_HUMAN	ferritin mitochondrial precursor	112	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)		ACAACTTCTCCAGGTATTTCC	0.577													10	14	---	---	---	---	PASS
FTMT	94033	broad.mit.edu	37	5	121188068	121188068	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:121188068G>A	uc003kss.2	+	1	419	c.410G>A	c.(409-411)GGA>GAA	p.G137E		NM_177478	NP_803431	Q8N4E7	FTMT_HUMAN	ferritin mitochondrial precursor	137	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)		AACCAGCGAGGAGGCCGGATC	0.582													7	25	---	---	---	---	PASS
FTMT	94033	broad.mit.edu	37	5	121188234	121188234	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:121188234C>T	uc003kss.2	+	1	585	c.576C>T	c.(574-576)TTC>TTT	p.F192F		NM_177478	NP_803431	Q8N4E7	FTMT_HUMAN	ferritin mitochondrial precursor	192	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)		TGTGCGATTTCCTGGAAACCT	0.512													40	65	---	---	---	---	PASS
SRFBP1	153443	broad.mit.edu	37	5	121356383	121356383	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:121356383A>T	uc003kst.1	+	6	1025	c.953A>T	c.(952-954)GAT>GTT	p.D318V		NM_152546	NP_689759	Q8NEF9	SRFB1_HUMAN	serum response factor binding protein 1	318					regulation of transcription, DNA-dependent|transcription, DNA-dependent	perinuclear region of cytoplasm					0		all_cancers(142;0.0124)|Prostate(80;0.0322)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000227)|Epithelial(69;0.000365)|all cancers(49;0.00517)		CTTAAAGAAGATACAGGTGAA	0.363													12	20	---	---	---	---	PASS
ZNF474	133923	broad.mit.edu	37	5	121488583	121488583	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:121488583C>T	uc003ksv.2	+	2	1274	c.898C>T	c.(898-900)CTG>TTG	p.L300L		NM_207317	NP_997200	Q6S9Z5	ZN474_HUMAN	zinc finger protein 474	300						intracellular	zinc ion binding				0		all_cancers(142;0.229)|Prostate(80;0.0387)	KIRC - Kidney renal clear cell carcinoma(527;0.206)	OV - Ovarian serous cystadenocarcinoma(64;0.000197)|Epithelial(69;0.00029)|all cancers(49;0.00415)		AGACCGCCTCCTGGTACACCA	0.463													11	30	---	---	---	---	PASS
CEP120	153241	broad.mit.edu	37	5	122722273	122722273	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:122722273G>T	uc003ktk.2	-	11	1601	c.1519C>A	c.(1519-1521)CAG>AAG	p.Q507K	CEP120_uc011cwq.1_Missense_Mutation_p.Q316K|CEP120_uc010jcz.1_Missense_Mutation_p.Q481K	NM_153223	NP_694955	Q8N960	CE120_HUMAN	coiled-coil domain containing 100	507						centrosome				ovary(1)	1						CAGTAAGACTGGGGAAGAAAA	0.353													4	35	---	---	---	---	PASS
ZNF608	57507	broad.mit.edu	37	5	123974901	123974901	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:123974901G>A	uc003ktq.1	-	8	4580	c.4457C>T	c.(4456-4458)ACC>ATC	p.T1486I	ZNF608_uc003ktr.1_RNA|ZNF608_uc003ktp.1_Missense_Mutation_p.T181I	NM_020747	NP_065798	Q9ULD9	ZN608_HUMAN	zinc finger protein 608	1486						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)		GGCAGCAGAGGTCAAGCCTAA	0.473													8	8	---	---	---	---	PASS
LMNB1	4001	broad.mit.edu	37	5	126156594	126156594	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:126156594C>T	uc003kud.1	+						LMNB1_uc010jdb.1_Intron|LMNB1_uc011cxb.1_Intron	NM_005573	NP_005564	P20700	LMNB1_HUMAN	lamin B1						cellular component disassembly involved in apoptosis	lamin filament|nuclear inner membrane	protein binding|structural molecule activity			kidney(1)|central_nervous_system(1)	2		all_cancers(142;0.103)|Prostate(80;0.081)	KIRC - Kidney renal clear cell carcinoma(527;0.0268)|Kidney(363;0.0488)	Epithelial(69;0.033)|OV - Ovarian serous cystadenocarcinoma(64;0.0398)|all cancers(49;0.0903)		TTTATTTTTCCCATATAGGTT	0.338													3	4	---	---	---	---	PASS
MEGF10	84466	broad.mit.edu	37	5	126676210	126676210	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:126676210C>T	uc003kuh.3	+						MEGF10_uc010jdc.1_Intron|MEGF10_uc010jdd.1_Intron|MEGF10_uc003kui.3_Intron	NM_032446	NP_115822	Q96KG7	MEG10_HUMAN	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)		GCTAATTTTTCCTTCTCTATA	0.358													12	32	---	---	---	---	PASS
MEGF10	84466	broad.mit.edu	37	5	126784925	126784925	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:126784925C>T	uc003kuh.3	+						MEGF10_uc003kui.3_Intron	NM_032446	NP_115822	Q96KG7	MEG10_HUMAN	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)		GTGAGTTCTCCCAACGCACGT	0.542													15	26	---	---	---	---	PASS
SLC12A2	6558	broad.mit.edu	37	5	127448533	127448533	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:127448533G>A	uc003kus.2	+	2	948	c.784G>A	c.(784-786)GGG>AGG	p.G262R	SLC12A2_uc010jdf.2_RNA|SLC12A2_uc010jdg.2_Missense_Mutation_p.G262R	NM_001046	NP_001037	P55011	S12A2_HUMAN	solute carrier family 12	262	Cytoplasmic (Potential).				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)	CTTTGCAAATGGGGAAGAAAG	0.348													22	35	---	---	---	---	PASS
FBN2	2201	broad.mit.edu	37	5	127648327	127648327	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:127648327G>A	uc003kuu.2	-	37	5317	c.4878C>T	c.(4876-4878)AGC>AGT	p.S1626S		NM_001999	NP_001990	P35556	FBN2_HUMAN	fibrillin 2 precursor	1626	TB 6.				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)		TGTACTTACTGCTATTGACAG	0.507													81	128	---	---	---	---	PASS
ISOC1	51015	broad.mit.edu	37	5	128440726	128440726	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:128440726C>T	uc003kva.2	+	2	405	c.387C>T	c.(385-387)GCC>GCT	p.A129A		NM_016048	NP_057132	Q96CN7	ISOC1_HUMAN	isochorismatase domain containing 1	129						peroxisome	catalytic activity				0		all_cancers(142;0.0813)|Prostate(80;0.0865)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	Epithelial(69;0.138)|OV - Ovarian serous cystadenocarcinoma(64;0.164)		TCAGACCAGCCATCAAGTATT	0.378													24	53	---	---	---	---	PASS
ADAMTS19	171019	broad.mit.edu	37	5	128844924	128844924	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:128844924G>A	uc003kvb.1	+	3	884	c.884G>A	c.(883-885)GGT>GAT	p.G295D	ADAMTS19_uc003kvc.1_RNA	NM_133638	NP_598377	Q8TE59	ATS19_HUMAN	ADAM metallopeptidase with thrombospondin type 1	295	Cysteine switch (By similarity).				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)		CATTACTGTGGTATCATTTCA	0.388													10	42	---	---	---	---	PASS
RAPGEF6	51735	broad.mit.edu	37	5	130828461	130828461	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:130828461G>A	uc003kvn.1	-	14	1751	c.1545C>T	c.(1543-1545)CTC>CTT	p.L515L	RAPGEF6_uc003kvp.1_Silent_p.L565L|RAPGEF6_uc003kvo.1_Silent_p.L515L|RAPGEF6_uc010jdi.1_Silent_p.L515L|RAPGEF6_uc010jdj.1_Silent_p.L515L|RAPGEF6_uc003kvq.2_Silent_p.L232L|RAPGEF6_uc003kvr.2_Silent_p.L515L|RAPGEF6_uc011cxe.1_RNA|RAPGEF6_uc010jdk.2_Silent_p.L515L	NM_016340	NP_057424	Q8TEU7	RPGF6_HUMAN	PDZ domain-containing guanine nucleotide	515	N-terminal Ras-GEF.				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)		TCAATAACCGGAGATGACCAT	0.378													9	19	---	---	---	---	PASS
IL4	3565	broad.mit.edu	37	5	132015469	132015469	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:132015469C>T	uc003kxk.1	+	3	617	c.247C>T	c.(247-249)CAT>TAT	p.H83Y	IL4_uc003kxl.1_Missense_Mutation_p.H67Y	NM_000589	NP_000580	P05112	IL4_HUMAN	interleukin 4 isoform 1 precursor	83					B cell differentiation|cellular defense response|chemotaxis|cholesterol metabolic process|connective tissue growth factor biosynthetic process|negative regulation of apoptosis|negative regulation of osteoclast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of B cell proliferation|positive regulation of interleukin-13 production|positive regulation of isotype switching to IgE isotypes|positive regulation of isotype switching to IgG isotypes|positive regulation of MHC class II biosynthetic process|positive regulation of T cell differentiation|positive regulation of transcription from RNA polymerase II promoter|T-helper 2 cell cytokine production	extracellular space	cytokine activity|growth factor activity|interleukin-4 receptor binding				0		all_cancers(142;2.81e-05)|all_lung(232;1.47e-05)|Lung NSC(810;2.31e-05)|all_neural(839;0.0459)|Ovarian(839;0.0481)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)	GBM - Glioblastoma multiforme(465;0.00245)		CTACAGCCACCATGAGAAGGA	0.562													19	55	---	---	---	---	PASS
ANKRD43	134548	broad.mit.edu	37	5	132150955	132150955	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:132150955A>G	uc003kxw.2	+	1	1923	c.1642A>G	c.(1642-1644)ACA>GCA	p.T548A		NM_175873	NP_787069	Q2M3V2	ANR43_HUMAN	ankyrin repeat domain 43 precursor	548											0		all_cancers(142;0.086)|Breast(839;0.198)	KIRC - Kidney renal clear cell carcinoma(527;0.0186)|Kidney(363;0.0365)			TTTTCCTCCAACAACCTGAAG	0.567													8	15	---	---	---	---	PASS
C5orf20	140947	broad.mit.edu	37	5	134782807	134782807	+	5'UTR	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:134782807G>A	uc003lav.2	-	1						NM_130848	NP_570900	Q8TF63	DCNP1_HUMAN	dendritic cell nuclear protein 1							nucleus					0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0233)			ATAGTTGGGGGACCATTTTGG	0.517													5	14	---	---	---	---	PASS
TRPC7	57113	broad.mit.edu	37	5	135692782	135692782	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:135692782C>T	uc003lbn.1	-	1	294	c.291G>A	c.(289-291)CTG>CTA	p.L97L	TRPC7_uc010jef.1_Silent_p.L89L|TRPC7_uc010jeg.1_RNA|TRPC7_uc010jeh.1_Silent_p.L89L|TRPC7_uc010jei.1_Silent_p.L89L|TRPC7_uc010jej.1_5'UTR	NM_020389	NP_065122	Q9HCX4	TRPC7_HUMAN	transient receptor potential cation channel,	98	Cytoplasmic (Potential).|ANK 2.				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)			TCTCCTTCTTCAGCAGCAGCT	0.617													21	27	---	---	---	---	PASS
FAM53C	51307	broad.mit.edu	37	5	137682482	137682482	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:137682482C>T	uc003lcv.2	+	5	1483	c.1013C>T	c.(1012-1014)CCC>CTC	p.P338L	FAM53C_uc003lcw.2_Missense_Mutation_p.P338L|FAM53C_uc011cyq.1_RNA|FAM53C_uc011cyr.1_3'UTR	NM_001135647	NP_001129119	Q9NYF3	FA53C_HUMAN	hypothetical protein LOC51307	338										ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.004)|Kidney(363;0.00592)			AGCCCCCCACCCCTCTCTGCT	0.617													8	14	---	---	---	---	PASS
TMEM173	340061	broad.mit.edu	37	5	138860758	138860758	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:138860758G>A	uc003lep.2	-	4	648	c.397C>T	c.(397-399)CTC>TTC	p.L133F		NM_198282	NP_938023	Q86WV6	TM173_HUMAN	transmembrane protein 173	133	Helical; (Potential).				activation of innate immune response|apoptosis|cellular response to exogenous dsRNA|defense response to virus|innate immune response|interferon-beta production|positive regulation of defense response to virus by host|positive regulation of protein binding|positive regulation of protein import into nucleus, translocation|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter	endoplasmic reticulum membrane|integral to membrane|mitochondrial outer membrane|perinuclear region of cytoplasm|plasma membrane	protein homodimerization activity|protein kinase binding|transcription factor binding			upper_aerodigestive_tract(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			AGGCCCAGGAGGATGTTCAGT	0.602													10	28	---	---	---	---	PASS
TMEM173	340061	broad.mit.edu	37	5	138860759	138860759	+	Silent	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:138860759G>T	uc003lep.2	-	4	647	c.396C>A	c.(394-396)ATC>ATA	p.I132I		NM_198282	NP_938023	Q86WV6	TM173_HUMAN	transmembrane protein 173	132	Helical; (Potential).				activation of innate immune response|apoptosis|cellular response to exogenous dsRNA|defense response to virus|innate immune response|interferon-beta production|positive regulation of defense response to virus by host|positive regulation of protein binding|positive regulation of protein import into nucleus, translocation|positive regulation of transcription factor import into nucleus|positive regulation of transcription from RNA polymerase II promoter	endoplasmic reticulum membrane|integral to membrane|mitochondrial outer membrane|perinuclear region of cytoplasm|plasma membrane	protein homodimerization activity|protein kinase binding|transcription factor binding			upper_aerodigestive_tract(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00325)			GGCCCAGGAGGATGTTCAGTG	0.602													10	29	---	---	---	---	PASS
SLC35A4	113829	broad.mit.edu	37	5	139946784	139946784	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:139946784C>T	uc003lgg.1	+	3	758	c.30C>T	c.(28-30)GGC>GGT	p.G10G	APBB3_uc003lgc.1_5'Flank|APBB3_uc003lgd.1_5'Flank|APBB3_uc003lge.1_5'Flank|APBB3_uc003lgf.1_5'Flank|APBB3_uc010jfp.1_5'Flank|APBB3_uc011czi.1_5'Flank|APBB3_uc010jfr.1_5'Flank|SLC35A4_uc003lgh.1_Silent_p.G10G	NM_080670	NP_542401	Q96G79	S35A4_HUMAN	solute carrier family 35, member A4	10						Golgi membrane|integral to membrane	sugar:hydrogen symporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTATGCCAGGCCTGGGCCGTC	0.597													12	26	---	---	---	---	PASS
SLC35A4	113829	broad.mit.edu	37	5	139946785	139946785	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:139946785C>T	uc003lgg.1	+	3	759	c.31C>T	c.(31-33)CTG>TTG	p.L11L	APBB3_uc003lgc.1_5'Flank|APBB3_uc003lgd.1_5'Flank|APBB3_uc003lge.1_5'Flank|APBB3_uc003lgf.1_5'Flank|APBB3_uc010jfp.1_5'Flank|APBB3_uc011czi.1_5'Flank|APBB3_uc010jfr.1_5'Flank|SLC35A4_uc003lgh.1_Silent_p.L11L	NM_080670	NP_542401	Q96G79	S35A4_HUMAN	solute carrier family 35, member A4	11						Golgi membrane|integral to membrane	sugar:hydrogen symporter activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TATGCCAGGCCTGGGCCGTCC	0.597													11	26	---	---	---	---	PASS
IK	3550	broad.mit.edu	37	5	140032629	140032629	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140032629C>T	uc003lgq.2	+	5	414	c.304C>T	c.(304-306)CGT>TGT	p.R102C	IK_uc011czk.1_Missense_Mutation_p.R102C	NM_006083	NP_006074	Q13123	RED_HUMAN	RED protein	102					cell-cell signaling|immune response	extracellular space|nucleus|soluble fraction				large_intestine(1)	1		all_hematologic(541;4.8e-07)|all_lung(500;0.000434)|Lung NSC(810;0.00161)|Breast(839;0.128)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTACCGGGATCGTGCCAAGGA	0.483													8	52	---	---	---	---	PASS
HARS2	23438	broad.mit.edu	37	5	140075750	140075750	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140075750C>T	uc003lgx.2	+	7	912	c.696C>T	c.(694-696)TTC>TTT	p.F232F	HARS2_uc010jfv.1_3'UTR|HARS2_uc011czr.1_Silent_p.F207F|HARS2_uc011czs.1_Silent_p.F88F|HARS2_uc011czt.1_Intron|HARS2_uc011czu.1_Intron	NM_012208	NP_036340	P49590	SYHM_HUMAN	histidyl-tRNA synthetase 2 precursor	232					histidyl-tRNA aminoacylation	mitochondrial matrix	ATP binding|histidine-tRNA ligase activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AAAGCAAGTTCCGTGCCATCT	0.468													8	51	---	---	---	---	PASS
PCDHA1	56147	broad.mit.edu	37	5	140167249	140167249	+	Silent	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140167249C>A	uc003lhb.2	+	1	1374	c.1374C>A	c.(1372-1374)CCC>CCA	p.P458P	PCDHA1_uc003lha.2_Silent_p.P458P|PCDHA1_uc003lgz.2_Silent_p.P458P	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	458	Cadherin 5.|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)			TCGCGCAGCCCGAGTACACAG	0.682													4	62	---	---	---	---	PASS
PCDHA1	56147	broad.mit.edu	37	5	140167790	140167790	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140167790G>A	uc003lhb.2	+	1	1915	c.1915G>A	c.(1915-1917)GAG>AAG	p.E639K	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lgz.2_Missense_Mutation_p.E639K	NM_018900	NP_061723	Q9Y5I3	PCDA1_HUMAN	protocadherin alpha 1 isoform 1 precursor	639	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)			TGTCCTGGACGAGGCTGACTT	0.647													14	46	---	---	---	---	PASS
PCDHA2	56146	broad.mit.edu	37	5	140175978	140175978	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140175978G>A	uc003lhd.2	+	1	1535	c.1429G>A	c.(1429-1431)GTG>ATG	p.V477M	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhc.1_Missense_Mutation_p.V477M|PCDHA2_uc011czy.1_Missense_Mutation_p.V477M	NM_018905	NP_061728	Q9Y5H9	PCDA2_HUMAN	protocadherin alpha 2 isoform 1 precursor	477	Cadherin 5.|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)			CATCTTCACGGTGTCAGCGTG	0.652													12	39	---	---	---	---	PASS
PCDHA3	56145	broad.mit.edu	37	5	140180932	140180932	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140180932G>A	uc003lhf.2	+	1	150	c.150G>A	c.(148-150)CAG>CAA	p.Q50Q	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Silent_p.Q50Q	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	50	Cadherin 1.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCATCGCGCAGGACCTGGGGC	0.647													13	36	---	---	---	---	PASS
PCDHA3	56145	broad.mit.edu	37	5	140181435	140181435	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140181435G>A	uc003lhf.2	+	1	653	c.653G>A	c.(652-654)GGG>GAG	p.G218E	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Missense_Mutation_p.G218E	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	218	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			ATTGATGGTGGGAAACCAGAG	0.388													18	25	---	---	---	---	PASS
PCDHA3	56145	broad.mit.edu	37	5	140182175	140182175	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140182175A>C	uc003lhf.2	+	1	1393	c.1393A>C	c.(1393-1395)AAG>CAG	p.K465Q	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Missense_Mutation_p.K465Q	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	465	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGTGTTCGTGAAGGAGAACAA	0.662													17	43	---	---	---	---	PASS
PCDHA3	56145	broad.mit.edu	37	5	140182444	140182444	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140182444C>T	uc003lhf.2	+	1	1662	c.1662C>T	c.(1660-1662)TTC>TTT	p.F554F	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Silent_p.F554F	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	554	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGCAGGTGTTCGTGCTGGACG	0.687													45	54	---	---	---	---	PASS
PCDHA3	56145	broad.mit.edu	37	5	140182609	140182609	+	Nonsense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140182609T>A	uc003lhf.2	+	1	1827	c.1827T>A	c.(1825-1827)TAT>TAA	p.Y609*	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA2_uc011czy.1_Intron|PCDHA3_uc011czz.1_Nonsense_Mutation_p.Y609*	NM_018906	NP_061729	Q9Y5H8	PCDA3_HUMAN	protocadherin alpha 3 isoform 1 precursor	609	Cadherin 6.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(6)|skin(2)	8			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGCTTTCGTATGAGCTGCAGC	0.677													25	28	---	---	---	---	PASS
PCDHA4	56144	broad.mit.edu	37	5	140187398	140187398	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140187398T>G	uc003lhi.2	+	1	727	c.626T>G	c.(625-627)TTT>TGT	p.F209C	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Missense_Mutation_p.F209C|PCDHA4_uc011daa.1_Missense_Mutation_p.F209C	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	209	Extracellular (Potential).|Cadherin 2.				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)			CCGGAGATTTTTTTAGTGCTC	0.453													21	32	---	---	---	---	PASS
PCDHA4	56144	broad.mit.edu	37	5	140188168	140188168	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140188168G>A	uc003lhi.2	+	1	1497	c.1396G>A	c.(1396-1398)GAG>AAG	p.E466K	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Missense_Mutation_p.E466K|PCDHA4_uc011daa.1_Missense_Mutation_p.E466K	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	466	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)			GTTCGTGAAGGAGAACAACCC	0.642													8	31	---	---	---	---	PASS
PCDHA4	56144	broad.mit.edu	37	5	140188245	140188245	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140188245C>T	uc003lhi.2	+	1	1574	c.1473C>T	c.(1471-1473)TCC>TCT	p.S491S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Silent_p.S491S|PCDHA4_uc011daa.1_Silent_p.S491S	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	491	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)			CGCTGGTGTCCTACTCGCTGG	0.657													6	27	---	---	---	---	PASS
PCDHA4	56144	broad.mit.edu	37	5	140188728	140188728	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140188728G>A	uc003lhi.2	+	1	2057	c.1956G>A	c.(1954-1956)AAG>AAA	p.K652K	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhh.1_Silent_p.K652K|PCDHA4_uc011daa.1_Silent_p.K652K	NM_018907	NP_061730	Q9UN74	PCDA4_HUMAN	protocadherin alpha 4 isoform 1 precursor	652	Cadherin 6.|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)			TACTGGTGAAGGACCACGGCG	0.677													13	55	---	---	---	---	PASS
PCDHA6	56142	broad.mit.edu	37	5	140207721	140207721	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140207721C>T	uc003lho.2	+	1	72	c.45C>T	c.(43-45)CTC>CTT	p.L15L	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Silent_p.L15L|PCDHA6_uc011dab.1_Silent_p.L15L	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	15					homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AATGTCTGCTCCTCCCGCTTC	0.532													27	57	---	---	---	---	PASS
PCDHA6	56142	broad.mit.edu	37	5	140209114	140209114	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140209114C>G	uc003lho.2	+	1	1465	c.1438C>G	c.(1438-1440)CGA>GGA	p.R480G	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_Missense_Mutation_p.R480G|PCDHA6_uc011dab.1_Missense_Mutation_p.R480G	NM_018909	NP_061732	Q9UN73	PCDA6_HUMAN	protocadherin alpha 6 isoform 1 precursor	480	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion|nervous system development	extracellular region|integral to plasma membrane	calcium ion binding|protein binding			haematopoietic_and_lymphoid_tissue(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGTGTCTGCGCGAGACGCGGA	0.647													9	34	---	---	---	---	PASS
PCDHA7	56141	broad.mit.edu	37	5	140214048	140214048	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140214048G>A	uc003lhq.2	+	1	80	c.80G>A	c.(79-81)GGG>GAG	p.G27E	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Missense_Mutation_p.G27E	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	27					homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGGGAGGCAGGGAGAGGCCAG	0.567													6	34	---	---	---	---	PASS
PCDHA7	56141	broad.mit.edu	37	5	140214425	140214425	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140214425C>T	uc003lhq.2	+	1	457	c.457C>T	c.(457-459)CCA>TCA	p.P153S	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc011dac.1_Missense_Mutation_p.P153S	NM_018910	NP_061733	Q9UN72	PCDA7_HUMAN	protocadherin alpha 7 isoform 1 precursor	153	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding|protein binding			ovary(2)|skin(2)	4			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTCTCGGTTTCCACTAGAGGG	0.557													20	33	---	---	---	---	PASS
PCDHA8	56140	broad.mit.edu	37	5	140221176	140221176	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140221176C>T	uc003lhs.2	+	1	270	c.270C>T	c.(268-270)ATC>ATT	p.I90I	PCDHA1_uc003lha.2_Intron|PCDHA1_uc003lhb.2_Intron|PCDHA2_uc003lhd.2_Intron|PCDHA3_uc003lhf.2_Intron|PCDHA4_uc003lhi.2_Intron|PCDHA4_uc003lhh.1_Intron|PCDHA5_uc003lhk.1_Intron|PCDHA5_uc003lhl.2_Intron|PCDHA6_uc003lhn.2_Intron|PCDHA6_uc003lho.2_Intron|PCDHA7_uc003lhq.2_Intron|PCDHA8_uc003lhr.1_Silent_p.I90I	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	90	Cadherin 1.|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)			ATTCTCGGATCGACCGCGAGG	0.612													27	95	---	---	---	---	PASS
PCDHA8	56140	broad.mit.edu	37	5	140222611	140222611	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140222611C>T	uc003lhs.2	+	1	1705	c.1705C>T	c.(1705-1707)CGG>TGG	p.R569W	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.R569W	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	569	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)			GCTGGAGCCTCGGGTGGGTGG	0.721													7	41	---	---	---	---	PASS
PCDHA8	56140	broad.mit.edu	37	5	140222729	140222729	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140222729C>T	uc003lhs.2	+	1	1823	c.1823C>T	c.(1822-1824)TCG>TTG	p.S608L	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.S608L	NM_018911	NP_061734	Q9Y5H6	PCDA8_HUMAN	protocadherin alpha 8 isoform 1 precursor	608	Cadherin 6.|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)			GCGTGGCTTTCGTATGAGCTG	0.682													34	33	---	---	---	---	PASS
PCDHA9	9752	broad.mit.edu	37	5	140229200	140229200	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140229200G>T	uc003lhu.2	+	1	1844	c.1120G>T	c.(1120-1122)GTG>TTG	p.V374L	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_uc003lht.1_Missense_Mutation_p.V374L	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor	374	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTGATTAGTGTGATCGACCT	0.507													10	55	---	---	---	---	PASS
PCDHA9	9752	broad.mit.edu	37	5	140229371	140229371	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140229371G>A	uc003lhu.2	+	1	2015	c.1291G>A	c.(1291-1293)GGC>AGC	p.G431S	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_uc003lht.1_Missense_Mutation_p.G431S	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor	431	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCGGGACGGGGGCTCGCCTTC	0.632													15	56	---	---	---	---	PASS
PCDHA9	9752	broad.mit.edu	37	5	140229634	140229634	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140229634C>T	uc003lhu.2	+	1	2278	c.1554C>T	c.(1552-1554)TAC>TAT	p.Y518Y	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_uc003lht.1_Silent_p.Y518Y	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor	518	Cadherin 5.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCAAGGTGTACGCGCTGCAGC	0.687													11	52	---	---	---	---	PASS
PCDHA9	9752	broad.mit.edu	37	5	140229833	140229833	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140229833G>A	uc003lhu.2	+	1	2477	c.1753G>A	c.(1753-1755)GTG>ATG	p.V585M	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_uc003lht.1_Missense_Mutation_p.V585M	NM_031857	NP_114063	Q9Y5H5	PCDA9_HUMAN	protocadherin alpha 9 isoform 1 precursor	585	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding|protein binding			large_intestine(2)|ovary(2)|skin(1)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GCTGCGGTCGGTGGGCGCCGG	0.672													14	44	---	---	---	---	PASS
PCDHA10	56139	broad.mit.edu	37	5	140235755	140235755	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140235755G>A	uc003lhx.2	+	1	122	c.122G>A	c.(121-123)GGC>GAC	p.G41D	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.G41D|PCDHA10_uc011dad.1_Missense_Mutation_p.G41D	NM_018901	NP_061724	Q9Y5I2	PCDAA_HUMAN	protocadherin alpha 10 isoform 1 precursor	41	Extracellular (Potential).|Cadherin 1.				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)			GCCAGACACGGCACCTTCGTG	0.672													14	32	---	---	---	---	PASS
PCDHA10	56139	broad.mit.edu	37	5	140237067	140237067	+	Silent	SNP	G	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140237067G>C	uc003lhx.2	+	1	1434	c.1434G>C	c.(1432-1434)GCG>GCC	p.A478A	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_Silent_p.A478A|PCDHA10_uc011dad.1_Silent_p.A478A	NM_018901	NP_061724	Q9Y5I2	PCDAA_HUMAN	protocadherin alpha 10 isoform 1 precursor	478	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)			CGGTGTCTGCGTGGGACGCGG	0.662													22	50	---	---	---	---	PASS
PCDHA12	56137	broad.mit.edu	37	5	140255160	140255160	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140255160G>A	uc003lic.2	+	1	230	c.103G>A	c.(103-105)GTC>ATC	p.V35I	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.V35I	NM_018903	NP_061726	Q9UN75	PCDAC_HUMAN	protocadherin alpha 12 isoform 1 precursor	35	Cadherin 1.|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)			CCACTACTCCGTCTACGAGGA	0.677													10	15	---	---	---	---	PASS
PCDHA13	56136	broad.mit.edu	37	5	140262269	140262269	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140262269G>A	uc003lif.2	+	1	416	c.416G>A	c.(415-417)CGA>CAA	p.R139Q	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.R139Q|PCDHA13_uc003lid.2_Missense_Mutation_p.R139Q	NM_018904	NP_061727	Q9Y5I0	PCDAD_HUMAN	protocadherin alpha 13 isoform 1 precursor	139	Extracellular (Potential).|Cadherin 2.				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)			AGCAAGAAACGAATAATCATT	0.498													18	44	---	---	---	---	PASS
PCDHAC1	56135	broad.mit.edu	37	5	140307343	140307343	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140307343A>T	uc003lih.2	+	1	1042	c.866A>T	c.(865-867)AAA>ATA	p.K289I	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.K289I	NM_018898	NP_061721	Q9H158	PCDC1_HUMAN	protocadherin alpha subfamily C, 1 isoform 1	289	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)			GTGCACCCTAAAAGTGGGGAG	0.547													17	26	---	---	---	---	PASS
PCDHAC1	56135	broad.mit.edu	37	5	140308116	140308116	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140308116G>A	uc003lih.2	+	1	1815	c.1639G>A	c.(1639-1641)GAT>AAT	p.D547N	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.D547N	NM_018898	NP_061721	Q9H158	PCDC1_HUMAN	protocadherin alpha subfamily C, 1 isoform 1	547	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion|nervous system development	integral to plasma membrane	calcium ion binding			skin(3)|ovary(2)	5			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GTTTGTGGTAGATAGGAATGA	0.488													37	51	---	---	---	---	PASS
PCDHAC1	56135	broad.mit.edu	37	5	140308458	140308458	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140308458C>T	uc003lih.2	+	1	2157	c.1981C>T	c.(1981-1983)CCT>TCT	p.P661S	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.P661S	NM_018898	NP_061721	Q9H158	PCDC1_HUMAN	protocadherin alpha subfamily C, 1 isoform 1	661	Cadherin 6.|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)			CAACTCTGTCCCTCAGTTACT	0.493													13	39	---	---	---	---	PASS
PCDHAC2	56134	broad.mit.edu	37	5	140346534	140346534	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140346534G>A	uc003lii.2	+	1	423	c.183G>A	c.(181-183)GTG>GTA	p.V61V	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.V61V	NM_018899	NP_061722	Q9Y5I4	PCDC2_HUMAN	protocadherin alpha subfamily C, 2 isoform 1	61	Cadherin 1.|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)			TGGGCAACGTGGCTCGCGCGC	0.617													3	3	---	---	---	---	PASS
PCDHB1	29930	broad.mit.edu	37	5	140432413	140432413	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140432413G>A	uc003lik.1	+	1	1435	c.1358G>A	c.(1357-1359)CGG>CAG	p.R453Q		NM_013340	NP_037472	Q9Y5F3	PCDB1_HUMAN	protocadherin beta 1 precursor	453	Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			CCAATATTTCGGGAAGATTCC	0.438													31	36	---	---	---	---	PASS
PCDHB2	56133	broad.mit.edu	37	5	140475885	140475885	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140475885C>T	uc003lil.2	+	1	1649	c.1511C>T	c.(1510-1512)TCC>TTC	p.S504F	PCDHB2_uc003lim.1_Missense_Mutation_p.S165F	NM_018936	NP_061759	Q9Y5E7	PCDB2_HUMAN	protocadherin beta 2 precursor	504	Extracellular (Potential).|Cadherin 5.				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)			CCCCTCGCCTCCCTGGTCTCC	0.687													23	46	---	---	---	---	PASS
PCDHB3	56132	broad.mit.edu	37	5	140480792	140480792	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140480792G>A	uc003lio.2	+	1	559	c.559G>A	c.(559-561)GAC>AAC	p.D187N	uc003lin.2_Intron	NM_018937	NP_061760	Q9Y5E6	PCDB3_HUMAN	protocadherin beta 3 precursor	187	Extracellular (Potential).|Cadherin 2.				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)			CAGTCGTAGGGACGGAAGGAA	0.552													27	50	---	---	---	---	PASS
PCDHB4	56131	broad.mit.edu	37	5	140502125	140502125	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140502125G>A	uc003lip.1	+	1	545	c.545G>A	c.(544-546)CGA>CAA	p.R182Q		NM_018938	NP_061761	Q9Y5E5	PCDB4_HUMAN	protocadherin beta 4 precursor	182	Cadherin 2.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	cytoplasm|integral to plasma membrane|intermediate filament cytoskeleton	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ATTCTCACTCGAAATCATAGT	0.463													9	23	---	---	---	---	PASS
PCDHB6	56130	broad.mit.edu	37	5	140531103	140531103	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140531103C>T	uc003lir.2	+	1	1265	c.1265C>T	c.(1264-1266)ACT>ATT	p.T422I	PCDHB6_uc011dah.1_Missense_Mutation_p.T286I	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	422	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			ATCACGGTCACTGATTTGGGG	0.527													16	55	---	---	---	---	PASS
PCDHB6	56130	broad.mit.edu	37	5	140531131	140531131	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140531131C>T	uc003lir.2	+	1	1293	c.1293C>T	c.(1291-1293)ACC>ACT	p.T431T	PCDHB6_uc011dah.1_Silent_p.T295T	NM_018939	NP_061762	Q9Y5E3	PCDB6_HUMAN	protocadherin beta 6 precursor	431	Cadherin 4.|Extracellular (Potential).				calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	integral to plasma membrane	calcium ion binding			skin(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			GGCTGAAAACCCAGCAGAGCA	0.562													33	44	---	---	---	---	PASS
PCDHB7	56129	broad.mit.edu	37	5	140553593	140553593	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140553593C>T	uc003lit.2	+	1	1351	c.1177C>T	c.(1177-1179)CTG>TTG	p.L393L		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	393	Extracellular (Potential).|Cadherin 4.				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)			CCCCTTCATCCTGAAGCCATC	0.483													10	49	---	---	---	---	PASS
PCDHB7	56129	broad.mit.edu	37	5	140553821	140553821	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140553821C>T	uc003lit.2	+	1	1579	c.1405C>T	c.(1405-1407)CCC>TCC	p.P469S		NM_018940	NP_061763	Q9Y5E2	PCDB7_HUMAN	protocadherin beta 7 precursor	469	Extracellular (Potential).|Cadherin 5.				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)			CCCCGCCCTGCCCATCGGCAG	0.632													50	80	---	---	---	---	PASS
PCDHB8	56128	broad.mit.edu	37	5	140558451	140558451	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140558451C>T	uc011dai.1	+	1	1022	c.836C>T	c.(835-837)TCC>TTC	p.S279F	PCDHB16_uc003liv.2_5'Flank	NM_019120	NP_061993	Q9UN66	PCDB8_HUMAN	protocadherin beta 8 precursor	279	Cadherin 3.|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)			GGAGAGATTTCCTATTCACTT	0.413													22	115	---	---	---	---	PASS
PCDHB10	56126	broad.mit.edu	37	5	140572150	140572150	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140572150C>T	uc003lix.2	+	1	199	c.25C>T	c.(25-27)CCA>TCA	p.P9S		NM_018930	NP_061753	Q9UN67	PCDBA_HUMAN	protocadherin beta 10 precursor	9					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)			GTTGTGCTTCCCAAGACAAAG	0.473													27	47	---	---	---	---	PASS
PCDHB10	56126	broad.mit.edu	37	5	140573133	140573133	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140573133A>T	uc003lix.2	+	1	1182	c.1008A>T	c.(1006-1008)GAA>GAT	p.E336D		NM_018930	NP_061753	Q9UN67	PCDBA_HUMAN	protocadherin beta 10 precursor	336	Extracellular (Potential).|Cadherin 3.				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)			TTTTAGTGGAAGTATTGGACA	0.408													13	53	---	---	---	---	PASS
PCDHB11	56125	broad.mit.edu	37	5	140579777	140579777	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140579777G>T	uc003liy.2	+	1	430	c.430G>T	c.(430-432)GAG>TAG	p.E144*	PCDHB11_uc011daj.1_Intron	NM_018931	NP_061754	Q9Y5F2	PCDBB_HUMAN	protocadherin beta 11 precursor	144	Extracellular (Potential).|Cadherin 2.				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)			AGAAATCCCAGAGAACAGTCC	0.423													32	123	---	---	---	---	PASS
PCDHB12	56124	broad.mit.edu	37	5	140588952	140588952	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140588952A>T	uc003liz.2	+	1	662	c.473A>T	c.(472-474)AAG>ATG	p.K158M	PCDHB12_uc011dak.1_Intron	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	158	Extracellular (Potential).|Cadherin 2.				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)			GAAAGTGCAAAGGATTTAGAT	0.373													11	46	---	---	---	---	PASS
PCDHB12	56124	broad.mit.edu	37	5	140589097	140589097	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140589097G>A	uc003liz.2	+	1	807	c.618G>A	c.(616-618)CCG>CCA	p.P206P	PCDHB12_uc011dak.1_Intron	NM_018932	NP_061755	Q9Y5F1	PCDBC_HUMAN	protocadherin beta 12 precursor	206	Extracellular (Potential).|Cadherin 2.				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)			AAGAGCGCCCGGAGCTCAGTT	0.498													8	27	---	---	---	---	PASS
PCDHGA1	56114	broad.mit.edu	37	5	140710553	140710553	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140710553C>T	uc003lji.1	+	1	302	c.302C>T	c.(301-303)CCG>CTG	p.P101L	PCDHGA1_uc011dan.1_Missense_Mutation_p.P101L	NM_018912	NP_061735	Q9Y5H4	PCDG1_HUMAN	protocadherin gamma subfamily A, 1 isoform 1	101	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)			CAGAGCATGCCGTGTCTCGTG	0.468													29	89	---	---	---	---	PASS
PCDHGA3	56112	broad.mit.edu	37	5	140724155	140724155	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140724155C>T	uc003ljm.1	+	1	555	c.555C>T	c.(553-555)GTC>GTT	p.V185V	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_5'UTR|PCDHGA3_uc011dap.1_Silent_p.V185V	NM_018916	NP_061739	Q9Y5H0	PCDG3_HUMAN	protocadherin gamma subfamily A, 3 isoform 1	185	Extracellular (Potential).|Cadherin 2.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGAATAGCGTCTCTGAGGGGG	0.512													42	60	---	---	---	---	PASS
PCDHGA3	56112	broad.mit.edu	37	5	140724881	140724881	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140724881G>A	uc003ljm.1	+	1	1281	c.1281G>A	c.(1279-1281)GGG>GGA	p.G427G	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_Silent_p.G187G|PCDHGA3_uc011dap.1_Silent_p.G427G	NM_018916	NP_061739	Q9Y5H0	PCDG3_HUMAN	protocadherin gamma subfamily A, 3 isoform 1	427	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCTCAGATGGGGGAAGCCCGC	0.468													29	50	---	---	---	---	PASS
PCDHGA3	56112	broad.mit.edu	37	5	140725985	140725985	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140725985G>A	uc003ljm.1	+	1	2385	c.2385G>A	c.(2383-2385)CAG>CAA	p.Q795Q	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc010jfx.1_Silent_p.Q555Q|PCDHGA3_uc011dap.1_Silent_p.Q795Q	NM_018916	NP_061739	Q9Y5H0	PCDG3_HUMAN	protocadherin gamma subfamily A, 3 isoform 1	795	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGATAACTCAGGATTTACTTG	0.418													28	45	---	---	---	---	PASS
PCDHGB1	56104	broad.mit.edu	37	5	140731289	140731289	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140731289C>T	uc003ljo.1	+	1	1462	c.1462C>T	c.(1462-1464)CTG>TTG	p.L488L	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc011daq.1_Silent_p.L488L	NM_018922	NP_061745	Q9Y5G3	PCDGD_HUMAN	protocadherin gamma subfamily B, 1 isoform 1	488	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTACTCTATTCTGGCCAGTGA	0.637													12	20	---	---	---	---	PASS
PCDHGA4	56111	broad.mit.edu	37	5	140736714	140736714	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140736714T>A	uc003ljq.1	+	1	1947	c.1947T>A	c.(1945-1947)CAT>CAA	p.H649Q	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGB2_uc003ljs.1_5'Flank|PCDHGA4_uc003ljp.1_Missense_Mutation_p.H649Q|PCDHGB2_uc011dar.1_5'Flank	NM_018917	NP_061740	Q9Y5G9	PCDG4_HUMAN	protocadherin gamma subfamily A, 4 isoform 1	649	Extracellular (Potential).|Cadherin 6.				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)			TCCAGGACCATGGCCAGCCCC	0.642													12	12	---	---	---	---	PASS
PCDHGB2	56103	broad.mit.edu	37	5	140741210	140741210	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140741210C>T	uc003ljs.1	+	1	1508	c.1508C>T	c.(1507-1509)TCC>TTC	p.S503F	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGA5_uc003lju.1_5'Flank|PCDHGB2_uc011dar.1_Missense_Mutation_p.S503F|PCDHGA5_uc011das.1_5'Flank	NM_018923	NP_061746	Q9Y5G2	PCDGE_HUMAN	protocadherin gamma subfamily B, 2 isoform 1	503	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAGATTTTATCCTACGTGTCC	0.622													13	26	---	---	---	---	PASS
PCDHGA5	56110	broad.mit.edu	37	5	140745898	140745898	+	Silent	SNP	G	A	A	rs34761299		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140745898G>A	uc003lju.1	+	1	2001	c.2001G>A	c.(1999-2001)AGG>AGA	p.R667R	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.R667R	NM_018918	NP_061741	Q9Y5G8	PCDG5_HUMAN	protocadherin gamma subfamily A, 5 isoform 1	667	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)			TGGCCGACAGGATCCCTGACA	0.607													93	140	---	---	---	---	PASS
PCDHGB3	56102	broad.mit.edu	37	5	140750391	140750391	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140750391G>A	uc003ljw.1	+	1	430	c.430G>A	c.(430-432)GAA>AAA	p.E144K	PCDHGA1_uc003lji.1_Intron|PCDHGA2_uc003ljk.1_Intron|PCDHGA3_uc003ljm.1_Intron|PCDHGA3_uc010jfx.1_Intron|PCDHGB1_uc003ljo.1_Intron|PCDHGA4_uc003ljq.1_Intron|PCDHGB2_uc003ljs.1_Intron|PCDHGA5_uc003lju.1_Intron|PCDHGB3_uc011dat.1_Missense_Mutation_p.E144K	NM_018924	NP_061747	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3 isoform 1	144	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)			GGAAATCAGCGAACTGGCTCT	0.473													31	125	---	---	---	---	PASS
PCDHGB3	56102	broad.mit.edu	37	5	140750795	140750795	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140750795C>T	uc003ljw.1	+	1	834	c.834C>T	c.(832-834)ATC>ATT	p.I278I	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|PCDHGA6_uc003ljy.1_5'Flank|PCDHGB3_uc011dat.1_Silent_p.I278I|PCDHGA6_uc011dau.1_5'Flank	NM_018924	NP_061747	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3 isoform 1	278	Extracellular (Potential).|Cadherin 3.				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)			CCGAAATCATCTATGCCTTCA	0.468													52	83	---	---	---	---	PASS
PCDHGB3	56102	broad.mit.edu	37	5	140751743	140751743	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140751743G>A	uc003ljw.1	+	1	1782	c.1782G>A	c.(1780-1782)GTG>GTA	p.V594V	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|PCDHGA6_uc003ljy.1_5'Flank|PCDHGB3_uc011dat.1_Silent_p.V594V|PCDHGA6_uc011dau.1_5'Flank	NM_018924	NP_061747	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3 isoform 1	594	Extracellular (Potential).|Cadherin 6.				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)			TGGTGGCGGTGGACGCAGACT	0.662													8	45	---	---	---	---	PASS
PCDHGB3	56102	broad.mit.edu	37	5	140751831	140751831	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140751831G>A	uc003ljw.1	+	1	1870	c.1870G>A	c.(1870-1872)GGT>AGT	p.G624S	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|PCDHGA6_uc003ljy.1_5'Flank|PCDHGB3_uc011dat.1_Missense_Mutation_p.G624S|PCDHGA6_uc011dau.1_5'Flank	NM_018924	NP_061747	Q9Y5G1	PCDGF_HUMAN	protocadherin gamma subfamily B, 3 isoform 1	624	Extracellular (Potential).|Cadherin 6.				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)			CCTGCGCACGGGTGAGGTGCG	0.687													23	28	---	---	---	---	PASS
PCDHGA6	56109	broad.mit.edu	37	5	140754622	140754622	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140754622G>A	uc003ljy.1	+	1	972	c.972G>A	c.(970-972)GGG>GGA	p.G324G	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_uc011dau.1_Silent_p.G324G	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	324	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCGGGATGGGCCAGGTCTTC	0.413													30	92	---	---	---	---	PASS
PCDHGA6	56109	broad.mit.edu	37	5	140754633	140754633	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140754633G>A	uc003ljy.1	+	1	983	c.983G>A	c.(982-984)CGA>CAA	p.R328Q	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_uc011dau.1_Missense_Mutation_p.R328Q	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	328	Cadherin 3.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCAGGTCTTCGAGACAGAGCG	0.423													29	92	---	---	---	---	PASS
PCDHGA6	56109	broad.mit.edu	37	5	140755921	140755921	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140755921C>T	uc003ljy.1	+	1	2271	c.2271C>T	c.(2269-2271)GTC>GTT	p.V757V	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_uc011dau.1_Silent_p.V757V	NM_018919	NP_061742	Q9Y5G7	PCDG6_HUMAN	protocadherin gamma subfamily A, 6 isoform 1	757	Cytoplasmic (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			breast(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CCCACGAGGTCTCACTCACTG	0.577													30	50	---	---	---	---	PASS
PCDHGA7	56108	broad.mit.edu	37	5	140762560	140762560	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140762560C>T	uc003lka.1	+	1	94	c.94C>T	c.(94-96)CTC>TTC	p.L32F	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.L32F	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	32	Cadherin 1.|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)			AGGACGTATTCTCTACTCCGT	0.657													9	29	---	---	---	---	PASS
PCDHGA7	56108	broad.mit.edu	37	5	140762865	140762865	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140762865C>T	uc003lka.1	+	1	399	c.399C>T	c.(397-399)TTC>TTT	p.F133F	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_Silent_p.F133F	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	133	Cadherin 1.|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)			TTCCAAGATTCTTGACGGAAG	0.418													31	30	---	---	---	---	PASS
PCDHGA7	56108	broad.mit.edu	37	5	140763547	140763547	+	Missense_Mutation	SNP	C	T	T	rs145468093	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140763547C>T	uc003lka.1	+	1	1081	c.1081C>T	c.(1081-1083)CCT>TCT	p.P361S	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.P361S	NM_018920	NP_061743	Q9Y5G6	PCDG7_HUMAN	protocadherin gamma subfamily A, 7 isoform 1	361	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGAAGACACACCTCTTGGGAC	0.403													11	19	---	---	---	---	PASS
PCDHGA9	56107	broad.mit.edu	37	5	140784579	140784579	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140784579C>T	uc003lkh.1	+	1	2060	c.2060C>T	c.(2059-2061)TCA>TTA	p.S687L	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.S687L	NM_018921	NP_061744	Q9Y5G4	PCDG9_HUMAN	protocadherin gamma subfamily A, 9 isoform 1	687	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)			CTGGAGGCCTCAGACCTTACC	0.597													10	52	---	---	---	---	PASS
PCDHGA9	56107	broad.mit.edu	37	5	140784793	140784793	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140784793C>T	uc003lkh.1	+	1	2274	c.2274C>T	c.(2272-2274)TCC>TCT	p.S758S	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.S758S|PCDHGB6_uc003lki.1_5'Flank|PCDHGB6_uc003lkj.1_5'Flank	NM_018921	NP_061744	Q9Y5G4	PCDG9_HUMAN	protocadherin gamma subfamily A, 9 isoform 1	758	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)			AGGAGTTCTCCCTCACCGCTG	0.537													30	50	---	---	---	---	PASS
PCDHGA11	56105	broad.mit.edu	37	5	140802420	140802420	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140802420C>T	uc003lkq.1	+	1	1884	c.1626C>T	c.(1624-1626)CCC>CCT	p.P542P	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_uc003lko.1_Silent_p.P542P|PCDHGA11_uc003lkp.1_Silent_p.P542P	NM_018914	NP_061737	Q9Y5H2	PCDGB_HUMAN	protocadherin gamma subfamily A, 11 isoform 1	542	Extracellular (Potential).|Cadherin 5.				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding				0			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GGGACCCGCCCCTCAGCAGCA	0.582													41	76	---	---	---	---	PASS
PCDHGA11	56105	broad.mit.edu	37	5	140802924	140802924	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140802924C>T	uc003lkq.1	+	1	2388	c.2130C>T	c.(2128-2130)ATC>ATT	p.I710I	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_uc003lko.1_Silent_p.I710I|PCDHGA11_uc003lkp.1_Intron|PCDHGB8P_uc011daz.1_5'Flank	NM_018914	NP_061737	Q9Y5H2	PCDGB_HUMAN	protocadherin gamma subfamily A, 11 isoform 1	710	Helical; (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)			TCTTTGTCATCGTGCTGCTGG	0.592													5	36	---	---	---	---	PASS
ARAP3	64411	broad.mit.edu	37	5	141052628	141052628	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:141052628G>A	uc003llm.2	-	7	1123	c.1045C>T	c.(1045-1047)CAG>TAG	p.Q349*	ARAP3_uc011dbe.1_Nonsense_Mutation_p.Q11*|ARAP3_uc003lln.2_Nonsense_Mutation_p.Q271*|ARAP3_uc003llo.1_Nonsense_Mutation_p.Q349*	NM_022481	NP_071926	Q8WWN8	ARAP3_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	349	PH 1.				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						GTGATGACCTGGAACTTGTTG	0.597													19	26	---	---	---	---	PASS
ARAP3	64411	broad.mit.edu	37	5	141052630	141052630	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:141052630A>T	uc003llm.2	-	7	1121	c.1043T>A	c.(1042-1044)TTC>TAC	p.F348Y	ARAP3_uc011dbe.1_Missense_Mutation_p.F10Y|ARAP3_uc003lln.2_Missense_Mutation_p.F270Y|ARAP3_uc003llo.1_Missense_Mutation_p.F348Y	NM_022481	NP_071926	Q8WWN8	ARAP3_HUMAN	ArfGAP with RhoGAP domain, ankyrin repeat and PH	348	PH 1.				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						GATGACCTGGAACTTGTTGTC	0.597													21	26	---	---	---	---	PASS
PCDH1	5097	broad.mit.edu	37	5	141243174	141243174	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:141243174C>T	uc003llq.2	-	3	2839	c.2722G>A	c.(2722-2724)GGA>AGA	p.G908R	PCDH1_uc003llp.2_Missense_Mutation_p.G908R|PCDH1_uc011dbf.1_Missense_Mutation_p.G886R	NM_002587	NP_002578	Q08174	PCDH1_HUMAN	protocadherin 1 isoform 1 precursor	908	Cytoplasmic (Potential).				cell-cell signaling|homophilic cell adhesion|nervous system development	cell-cell junction|integral to plasma membrane	calcium ion binding			ovary(5)	5		Lung NSC(810;0.027)|all_lung(500;0.0321)|all_hematologic(541;0.0433)|Prostate(461;0.0453)|Breast(839;0.128)|Lung SC(612;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;1.06e-05)		CTTTTGTTTCCCTTGGAGGCC	0.577													25	33	---	---	---	---	PASS
PCDH1	5097	broad.mit.edu	37	5	141244804	141244804	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:141244804G>A	uc003llq.2	-	3	1209	c.1092C>T	c.(1090-1092)ACC>ACT	p.T364T	PCDH1_uc003llp.2_Silent_p.T364T|PCDH1_uc011dbf.1_Silent_p.T342T	NM_002587	NP_002578	Q08174	PCDH1_HUMAN	protocadherin 1 isoform 1 precursor	364	Extracellular (Potential).|Cadherin 3.				cell-cell signaling|homophilic cell adhesion|nervous system development	cell-cell junction|integral to plasma membrane	calcium ion binding			ovary(5)	5		Lung NSC(810;0.027)|all_lung(500;0.0321)|all_hematologic(541;0.0433)|Prostate(461;0.0453)|Breast(839;0.128)|Lung SC(612;0.238)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)	GBM - Glioblastoma multiforme(465;1.06e-05)		TCTTGGGGTTGGTGCCTCGGT	0.582													19	46	---	---	---	---	PASS
PCDH12	51294	broad.mit.edu	37	5	141335809	141335809	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:141335809G>A	uc003llx.2	-	1	2819	c.1608C>T	c.(1606-1608)ATC>ATT	p.I536I		NM_016580	NP_057664	Q9NPG4	PCD12_HUMAN	protocadherin 12 precursor	536	Extracellular (Potential).|Cadherin 5.				neuron recognition	integral to plasma membrane	calcium ion binding			ovary(3)	3		all_hematologic(541;0.0999)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGTCCTCTGCGATCACCTGGA	0.542													17	29	---	---	---	---	PASS
SH3RF2	153769	broad.mit.edu	37	5	145383661	145383661	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:145383661G>A	uc003lnt.2	+	4	927	c.689G>A	c.(688-690)TGG>TAG	p.W230*	SH3RF2_uc011dbl.1_Nonsense_Mutation_p.W230*	NM_152550	NP_689763	Q8TEC5	SH3R2_HUMAN	SH3 domain containing ring finger 2	230	SH3 2.						ligase activity|protein phosphatase 1 binding|zinc ion binding			ovary(1)|skin(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			GATGAGAACTGGGCAGAAGGC	0.423													12	48	---	---	---	---	PASS
STK32A	202374	broad.mit.edu	37	5	146754646	146754646	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:146754646C>T	uc010jgn.1	+						STK32A_uc003lom.2_Intron|STK32A_uc011dbw.1_Intron	NM_001112724	NP_001106195	Q8WU08	ST32A_HUMAN	serine/threonine kinase 32A isoform 1								ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(2)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			AACTGTCTTCCTTGCAGAAAG	0.398													6	21	---	---	---	---	PASS
STK32A	202374	broad.mit.edu	37	5	146754755	146754755	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:146754755G>A	uc010jgn.1	+	11	1286	c.1006G>A	c.(1006-1008)GAT>AAT	p.D336N	STK32A_uc003lom.2_Missense_Mutation_p.D336N|STK32A_uc011dbw.1_Missense_Mutation_p.D336N	NM_001112724	NP_001106195	Q8WU08	ST32A_HUMAN	serine/threonine kinase 32A isoform 1	336							ATP binding|metal ion binding|protein serine/threonine kinase activity			lung(2)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAAGGAGAAGGATATGAGGAA	0.448													9	6	---	---	---	---	PASS
JAKMIP2	9832	broad.mit.edu	37	5	147040805	147040805	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:147040805G>A	uc003loq.1	-	3	715	c.333C>T	c.(331-333)ATC>ATT	p.I111I	JAKMIP2_uc011dbx.1_Silent_p.I69I|JAKMIP2_uc003lor.1_Silent_p.I111I|uc003lop.1_3'UTR|JAKMIP2_uc010jgo.1_Silent_p.I111I	NM_014790	NP_055605	Q96AA8	JKIP2_HUMAN	janus kinase and microtubule interacting protein	111						Golgi apparatus				large_intestine(1)|ovary(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TGAGCCTCTGGATCTCTCCAT	0.562													38	87	---	---	---	---	PASS
SPINK5	11005	broad.mit.edu	37	5	147480126	147480126	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:147480126C>T	uc003lox.2	+	13	1275	c.1202C>T	c.(1201-1203)TCC>TTC	p.S401F	SPINK5_uc010jgs.1_Missense_Mutation_p.S373F|SPINK5_uc010jgr.2_Missense_Mutation_p.S382F|SPINK5_uc003low.2_Missense_Mutation_p.S401F|SPINK5_uc003loy.2_Missense_Mutation_p.S401F	NM_006846	NP_006837	Q9NQ38	ISK5_HUMAN	serine peptidase inhibitor, Kazal type 5 isoform	401	Kazal-like 6.				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)			AACACCTGCTCCATGTGTGAG	0.423													24	50	---	---	---	---	PASS
FBXO38	81545	broad.mit.edu	37	5	147795619	147795619	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:147795619C>T	uc003lpf.1	+	11	1513	c.1393C>T	c.(1393-1395)CGT>TGT	p.R465C	FBXO38_uc003lpg.1_Missense_Mutation_p.R465C|FBXO38_uc003lph.2_Missense_Mutation_p.R465C	NM_205836	NP_995308	Q6PIJ6	FBX38_HUMAN	F-box protein 38 isoform b	465						cytoplasm|nucleus				ovary(4)|skin(2)	6			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			TCAGATGTTTCGTGAACCACC	0.348													12	45	---	---	---	---	PASS
ADRB2	154	broad.mit.edu	37	5	148207179	148207179	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:148207179C>T	uc003lpr.1	+	1	1024	c.785C>T	c.(784-786)TCC>TTC	p.S262F	SH3TC2_uc003lpp.1_Intron	NM_000024	NP_000015	P07550	ADRB2_HUMAN	adrenergic, beta-2-, receptor, surface	262	Cytoplasmic.				activation of transmembrane receptor protein tyrosine kinase activity|desensitization of G-protein coupled receptor protein signaling pathway by arrestin|endosome to lysosome transport|positive regulation of MAPKKK cascade|receptor-mediated endocytosis	endosome|integral to plasma membrane|lysosome|receptor complex	beta2-adrenergic receptor activity|norepinephrine binding|potassium channel regulator activity|protein homodimerization activity			ovary(1)	1			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)		Alprenolol(DB00866)|Arformoterol(DB01274)|Bambuterol(DB01408)|Bisoprolol(DB00612)|Bitolterol(DB00901)|Bretylium(DB01158)|Carteolol(DB00521)|Carvedilol(DB01136)|Clenbuterol(DB01407)|Desipramine(DB01151)|Epinephrine(DB00668)|Fenoterol(DB01288)|Formoterol(DB00983)|Isoproterenol(DB01064)|Labetalol(DB00598)|Levobunolol(DB01210)|Metipranolol(DB01214)|Nadolol(DB01203)|Norepinephrine(DB00368)|Orciprenaline(DB00816)|Oxprenolol(DB01580)|Penbutolol(DB01359)|Pindolol(DB00960)|Pirbuterol(DB01291)|Procaterol(DB01366)|Propranolol(DB00571)|Pseudoephedrine(DB00852)|Ritodrine(DB00867)|Salbutamol(DB01001)|Salmeterol(DB00938)|Terbutaline(DB00871)|Timolol(DB00373)	CGCAGATCTTCCAAGTTCTGC	0.542													7	45	---	---	---	---	PASS
ABLIM3	22885	broad.mit.edu	37	5	148627333	148627333	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:148627333C>T	uc003lpy.2	+						ABLIM3_uc003lpz.1_Intron|ABLIM3_uc003lqa.1_Intron|ABLIM3_uc003lqb.2_Intron|ABLIM3_uc003lqc.1_Intron|ABLIM3_uc003lqd.1_Intron|ABLIM3_uc003lqf.2_Intron|ABLIM3_uc003lqe.1_Intron	NM_014945	NP_055760	O94929	ABLM3_HUMAN	actin binding LIM protein family, member 3						axon guidance|cytoskeleton organization	cytoplasm	actin binding|zinc ion binding			ovary(2)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			CTTGCTCTTCCCCGACCCTCA	0.547													8	35	---	---	---	---	PASS
PPARGC1B	133522	broad.mit.edu	37	5	149216068	149216068	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:149216068C>T	uc003lrc.2	+	8	2092	c.2050C>T	c.(2050-2052)CCC>TCC	p.P684S	PPARGC1B_uc003lrb.1_Missense_Mutation_p.P684S|PPARGC1B_uc003lrd.2_Missense_Mutation_p.P645S|PPARGC1B_uc003lrf.2_Missense_Mutation_p.P663S|PPARGC1B_uc003lre.1_Missense_Mutation_p.P663S	NM_133263	NP_573570	Q86YN6	PRGC2_HUMAN	peroxisome proliferator-activated receptor	684					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)			CCAGAAGCGTCCCTTCTCCTG	0.622													12	23	---	---	---	---	PASS
CSF1R	1436	broad.mit.edu	37	5	149449569	149449569	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:149449569G>A	uc003lrl.2	-	9	1572	c.1377C>T	c.(1375-1377)AGC>AGT	p.S459S	CSF1R_uc011dcd.1_Silent_p.S311S|CSF1R_uc010jhc.2_RNA|CSF1R_uc003lrm.2_Silent_p.S459S	NM_005211	NP_005202	P07333	CSF1R_HUMAN	colony stimulating factor 1 receptor precursor	459	Ig-like C2-type 5.|Extracellular (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)	AGGGCTCCTGGCTCAGGACCT	0.587													7	33	---	---	---	---	PASS
PDGFRB	5159	broad.mit.edu	37	5	149504279	149504279	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:149504279G>A	uc003lro.2	-						PDGFRB_uc010jhd.2_Intron	NM_002609	NP_002600	P09619	PGFRB_HUMAN	platelet-derived growth factor receptor beta						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)	AGGGCTCCAAGGACTACTCAC	0.602			T	ETV6|TRIP11|HIP1|RAB5EP|H4|NIN|HCMOGT-1|PDE4DIP	MPD|AML|CMML|CML								4	9	---	---	---	---	PASS
ARSI	340075	broad.mit.edu	37	5	149676783	149676783	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:149676783C>T	uc003lrv.2	-	2	2293	c.1704G>A	c.(1702-1704)CGG>CGA	p.R568R		NM_001012301	NP_001012301	Q5FYB1	ARSI_HUMAN	arylsulfatase family, member I precursor	568						endoplasmic reticulum|extracellular region	arylsulfatase activity|metal ion binding			ovary(1)|pancreas(1)	2			KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			ACCATCAGATCCGTTGGGACA	0.522													19	34	---	---	---	---	PASS
ZNF300	91975	broad.mit.edu	37	5	150276412	150276412	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:150276412C>T	uc003lsy.1	-	6	656	c.389G>A	c.(388-390)GGT>GAT	p.G130D	IRGM_uc011dcl.1_Intron	NM_052860	NP_443092	Q96RE9	ZN300_HUMAN	zinc finger protein 300	130					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2		Medulloblastoma(196;0.109)|all_hematologic(541;0.131)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			CTGACCATCACCTTGACAGAC	0.423													26	33	---	---	---	---	PASS
ZNF300	91975	broad.mit.edu	37	5	150278106	150278106	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:150278106G>A	uc003lsy.1	-	4	293	c.26C>T	c.(25-27)TCA>TTA	p.S9L	IRGM_uc011dcl.1_Intron	NM_052860	NP_443092	Q96RE9	ZN300_HUMAN	zinc finger protein 300	9	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|skin(1)	2		Medulloblastoma(196;0.109)|all_hematologic(541;0.131)	KIRC - Kidney renal clear cell carcinoma(527;0.000785)|Kidney(363;0.00101)			ATCCTTGAATGATACTAACCC	0.433													22	58	---	---	---	---	PASS
SLC36A1	206358	broad.mit.edu	37	5	150856202	150856202	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:150856202C>T	uc003luc.2	+	9	1091	c.874C>T	c.(874-876)CTG>TTG	p.L292L	GM2A_uc011dcs.1_Intron|SLC36A1_uc003lub.1_Silent_p.L292L|SLC36A1_uc010jhw.1_Silent_p.L292L	NM_078483	NP_510968	Q7Z2H8	S36A1_HUMAN	solute carrier family 36 member 1	292	Helical; Name=7; (Potential).				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)	CCCACTCATCCTGTACCTGGG	0.483													11	33	---	---	---	---	PASS
FAT2	2196	broad.mit.edu	37	5	150929025	150929025	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:150929025C>T	uc003lue.3	-	8	4633	c.4620G>A	c.(4618-4620)TGG>TGA	p.W1540*	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	1540	Extracellular (Potential).|Cadherin 13.				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)			GAATGGTCACCCACACGAAGT	0.542													6	15	---	---	---	---	PASS
FAT2	2196	broad.mit.edu	37	5	150929026	150929026	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:150929026C>T	uc003lue.3	-	8	4632	c.4619G>A	c.(4618-4620)TGG>TAG	p.W1540*	GM2A_uc011dcs.1_Intron	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	1540	Extracellular (Potential).|Cadherin 13.				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)			AATGGTCACCCACACGAAGTT	0.537													6	15	---	---	---	---	PASS
FAT2	2196	broad.mit.edu	37	5	150945550	150945550	+	Silent	SNP	G	A	A	rs138599681		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:150945550G>A	uc003lue.3	-	1	2956	c.2943C>T	c.(2941-2943)CTC>CTT	p.L981L	GM2A_uc011dcs.1_Intron|FAT2_uc010jhx.1_Silent_p.L981L	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	981	Extracellular (Potential).|Cadherin 8.				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)			TCTCCAGAATGAGCGCCCCTG	0.617													7	16	---	---	---	---	PASS
FAT2	2196	broad.mit.edu	37	5	150946443	150946443	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:150946443G>A	uc003lue.3	-	1	2063	c.2050C>T	c.(2050-2052)CTC>TTC	p.L684F	GM2A_uc011dcs.1_Intron|FAT2_uc010jhx.1_Missense_Mutation_p.L684F	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	684	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)			ATAAAGTGGAGGATAGTCTTT	0.403													20	29	---	---	---	---	PASS
FAT2	2196	broad.mit.edu	37	5	150947368	150947368	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:150947368G>A	uc003lue.3	-	1	1138	c.1125C>T	c.(1123-1125)TCC>TCT	p.S375S	GM2A_uc011dcs.1_Intron|FAT2_uc010jhx.1_Silent_p.S375S	NM_001447	NP_001438	Q9NYQ8	FAT2_HUMAN	FAT tumor suppressor 2 precursor	375	Extracellular (Potential).|Cadherin 3.				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)			TGCCAGGAGGGGAAAACTCAC	0.478													32	22	---	---	---	---	PASS
GALNT10	55568	broad.mit.edu	37	5	153796373	153796373	+	Splice_Site	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:153796373G>A	uc003lvh.2	+	12	1786	c.1654_splice	c.e12-1	p.D552_splice	GALNT10_uc010jic.2_Splice_Site|GALNT10_uc010jid.2_Splice_Site_p.D393_splice|uc003lvi.2_Intron|GALNT10_uc003lvj.2_Splice_Site_p.D223_splice	NM_198321	NP_938080	Q86SR1	GLT10_HUMAN	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)			ATGTTTTGTAGGACAAGACCC	0.493													13	24	---	---	---	---	PASS
GALNT10	55568	broad.mit.edu	37	5	153796374	153796374	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:153796374G>A	uc003lvh.2	+	12	1786	c.1654G>A	c.(1654-1656)GAC>AAC	p.D552N	GALNT10_uc010jic.2_RNA|GALNT10_uc010jid.2_Missense_Mutation_p.D393N|uc003lvi.2_Intron|GALNT10_uc003lvj.2_Missense_Mutation_p.D223N	NM_198321	NP_938080	Q86SR1	GLT10_HUMAN	GalNAc transferase 10 isoform a	552	Lumenal (Potential).|Ricin B-type lectin.					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)			TGTTTTGTAGGACAAGACCCT	0.493													13	23	---	---	---	---	PASS
SAP30L	79685	broad.mit.edu	37	5	153830692	153830692	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:153830692C>T	uc003lvk.2	+	2	891	c.243C>T	c.(241-243)ATC>ATT	p.I81I	SAP30L_uc003lvm.3_RNA|SAP30L_uc011ddc.1_Intron|SAP30L_uc011ddd.1_Intron|SAP30L_uc003lvl.2_RNA	NM_024632	NP_078908	Q9HAJ7	SP30L_HUMAN	SAP30-like isoform 1	81					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleolus	DNA binding|metal ion binding				0	Renal(175;0.00488)	Medulloblastoma(196;0.0523)	Kidney(363;8.21e-05)|KIRC - Kidney renal clear cell carcinoma(527;0.000577)			AAAATTTCATCCAGAGTGTCC	0.428													18	17	---	---	---	---	PASS
LARP1	23367	broad.mit.edu	37	5	154092696	154092696	+	Intron	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:154092696T>A	uc003lvo.2	+							NM_015315	NP_056130	Q6PKG0	LARP1_HUMAN	la related protein isoform 1								protein binding|RNA binding			ovary(2)|pancreas(1)|skin(1)	4	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			CCCTGGTGAGTCCTAGCACTC	0.388													13	12	---	---	---	---	PASS
LARP1	23367	broad.mit.edu	37	5	154092697	154092697	+	Intron	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:154092697C>A	uc003lvo.2	+							NM_015315	NP_056130	Q6PKG0	LARP1_HUMAN	la related protein isoform 1								protein binding|RNA binding			ovary(2)|pancreas(1)|skin(1)	4	Renal(175;0.00488)	Medulloblastoma(196;0.0354)|all_neural(177;0.147)	KIRC - Kidney renal clear cell carcinoma(527;0.00112)			CCTGGTGAGTCCTAGCACTCT	0.383													13	12	---	---	---	---	PASS
GEMIN5	25929	broad.mit.edu	37	5	154287306	154287306	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:154287306G>A	uc003lvx.3	-	16	2323	c.2240C>T	c.(2239-2241)CCC>CTC	p.P747L	GEMIN5_uc011ddk.1_Missense_Mutation_p.P746L	NM_015465	NP_056280	Q8TEQ6	GEMI5_HUMAN	gemin 5	747					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)			TCTCAAGGTGGGCTTTTTCTT	0.408													26	88	---	---	---	---	PASS
KIF4B	285643	broad.mit.edu	37	5	154394592	154394592	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:154394592G>A	uc010jih.1	+	1	1333	c.1173G>A	c.(1171-1173)AAG>AAA	p.K391K		NM_001099293	NP_001092763	Q2VIQ3	KIF4B_HUMAN	kinesin family member 4B	391	Potential.				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)			TGATGGAGAAGAATCAGTCCC	0.463													20	82	---	---	---	---	PASS
SGCD	6444	broad.mit.edu	37	5	155935705	155935705	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:155935705C>T	uc003lwd.3	+	3	760	c.284C>T	c.(283-285)TCC>TTC	p.S95F	SGCD_uc003lwa.1_Missense_Mutation_p.S96F|SGCD_uc003lwb.2_Missense_Mutation_p.S96F|SGCD_uc003lwc.3_Missense_Mutation_p.S96F	NM_001128209	NP_001121681	Q92629	SGCD_HUMAN	delta-sarcoglycan isoform 3	95	Extracellular (Potential).				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)			GAAATCCAGTCCCGACCAGTA	0.423													5	40	---	---	---	---	PASS
SGCD	6444	broad.mit.edu	37	5	155935706	155935706	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:155935706C>T	uc003lwd.3	+	3	761	c.285C>T	c.(283-285)TCC>TCT	p.S95S	SGCD_uc003lwa.1_Silent_p.S96S|SGCD_uc003lwb.2_Silent_p.S96S|SGCD_uc003lwc.3_Silent_p.S96S	NM_001128209	NP_001121681	Q92629	SGCD_HUMAN	delta-sarcoglycan isoform 3	95	Extracellular (Potential).				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)			AAATCCAGTCCCGACCAGTAA	0.428													5	40	---	---	---	---	PASS
SGCD	6444	broad.mit.edu	37	5	156186335	156186335	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:156186335G>A	uc003lwd.3	+	8	1280	c.804G>A	c.(802-804)GGG>GGA	p.G268G	SGCD_uc003lwc.3_Silent_p.G269G	NM_001128209	NP_001121681	Q92629	SGCD_HUMAN	delta-sarcoglycan isoform 3	268	Extracellular (Potential).				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)			GCGCCAATGGGAGATTATTCC	0.502													12	67	---	---	---	---	PASS
SOX30	11063	broad.mit.edu	37	5	157065364	157065364	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:157065364G>A	uc003lxb.1	-	4	2096	c.1754C>T	c.(1753-1755)CCC>CTC	p.P585L	SOX30_uc003lxc.1_Intron|SOX30_uc011dds.1_Missense_Mutation_p.P280L	NM_178424	NP_848511	O94993	SOX30_HUMAN	SRY (sex determining region Y)-box 30 isoform a	585	Pro-rich.				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)			GTGTGGAATGGGAGAAGCCTG	0.547													4	30	---	---	---	---	PASS
EBF1	1879	broad.mit.edu	37	5	158140059	158140059	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:158140059G>A	uc010jip.2	-	13	1590	c.1288C>T	c.(1288-1290)CAC>TAC	p.H430Y	EBF1_uc011ddw.1_Missense_Mutation_p.H298Y|EBF1_uc011ddx.1_Missense_Mutation_p.H431Y|EBF1_uc003lxl.3_Missense_Mutation_p.H399Y	NM_024007	NP_076870	Q9UH73	COE1_HUMAN	early B-cell factor	430					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)			ATCCCTGCGTGGACCGAGGTG	0.557			T	HMGA2	lipoma								14	18	---	---	---	---	PASS
EBF1	1879	broad.mit.edu	37	5	158223416	158223416	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:158223416G>A	uc010jip.2	-	9	1148	c.846C>T	c.(844-846)ATC>ATT	p.I282I	EBF1_uc011ddw.1_Silent_p.I150I|EBF1_uc011ddx.1_Silent_p.I283I|EBF1_uc003lxl.3_Silent_p.I251I	NM_024007	NP_076870	Q9UH73	COE1_HUMAN	early B-cell factor	282	IPT/TIG.				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)			TGTCCCCTATGATGATCACAG	0.458			T	HMGA2	lipoma								12	30	---	---	---	---	PASS
ADRA1B	147	broad.mit.edu	37	5	159344505	159344505	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:159344505C>T	uc003lxt.1	+	1	766	c.593C>T	c.(592-594)ACC>ATC	p.T198I		NM_000679	NP_000670	P35368	ADA1B_HUMAN	alpha-1B-adrenergic receptor	198	Extracellular (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)	TGCGGGGTCACCGAAGAACCC	0.577													18	40	---	---	---	---	PASS
C1QTNF2	114898	broad.mit.edu	37	5	159776683	159776683	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:159776683G>A	uc003lyd.2	-	3	489	c.485C>T	c.(484-486)CCC>CTC	p.P162L		NM_031908	NP_114114	Q9BXJ5	C1QT2_HUMAN	C1q and tumor necrosis factor related protein 2	117	Collagen-like.					collagen				skin(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)			ATGCTTCCCGGGGGTACCGTT	0.687													20	38	---	---	---	---	PASS
ATP10B	23120	broad.mit.edu	37	5	159992576	159992576	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:159992576C>A	uc003lym.1	-	26	5117	c.4270G>T	c.(4270-4272)GGG>TGG	p.G1424W	ATP10B_uc010jit.1_Missense_Mutation_p.G674W	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	1424	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(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			AGGTGCTCCCCGGATGAGAGT	0.557													4	79	---	---	---	---	PASS
ATP10B	23120	broad.mit.edu	37	5	160047825	160047825	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:160047825C>T	uc003lym.1	-	15	2792	c.1945G>A	c.(1945-1947)GAG>AAG	p.E649K	ATP10B_uc010jit.1_5'UTR|ATP10B_uc003lyn.2_Missense_Mutation_p.E207K	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	649	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(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CCTAAGCTCTCCCCGAGGTCT	0.557													14	79	---	---	---	---	PASS
ATP10B	23120	broad.mit.edu	37	5	160114830	160114830	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:160114830C>T	uc003lym.1	-	5	1099	c.252G>A	c.(250-252)CGG>CGA	p.R84R	ATP10B_uc003lyp.2_Silent_p.R84R|ATP10B_uc011deg.1_Silent_p.R128R|ATP10B_uc003lyo.2_5'Flank	NM_025153	NP_079429	O94823	AT10B_HUMAN	ATPase, class V, type 10B	84	Helical; (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(3)|central_nervous_system(1)|pancreas(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0377)|all_neural(177;0.121)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CAAAGAGATTCCGGGGCAGGA	0.353													23	42	---	---	---	---	PASS
GABRB2	2561	broad.mit.edu	37	5	160972295	160972295	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:160972295G>A	uc003lys.1	-	4	393	c.175C>T	c.(175-177)CCC>TCC	p.P59S	GABRB2_uc011deh.1_5'UTR|GABRB2_uc003lyr.1_Missense_Mutation_p.P59S|GABRB2_uc003lyt.1_Missense_Mutation_p.P59S|GABRB2_uc010jiu.1_5'UTR|GABRB2_uc011dei.1_Missense_Mutation_p.P59S	NM_021911	NP_068711	P47870	GBRB2_HUMAN	gamma-aminobutyric acid (GABA) A receptor, beta	59	Extracellular (Probable).				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)	ACAGCCACGGGGGGACCTGCA	0.453													9	9	---	---	---	---	PASS
GABRG2	2566	broad.mit.edu	37	5	161495117	161495117	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:161495117G>A	uc003lyz.3	+						GABRG2_uc010jjc.2_Intron|GABRG2_uc003lyy.3_Intron|GABRG2_uc011dej.1_Intron	NM_000816	NP_000807	P18507	GBRG2_HUMAN	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)		CCCTGGGTAAGATGTGCCCTT	0.502													7	29	---	---	---	---	PASS
WWC1	23286	broad.mit.edu	37	5	167882400	167882400	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:167882400C>A	uc003lzu.2	+	19	2791	c.2698C>A	c.(2698-2700)CCC>ACC	p.P900T	WWC1_uc003lzv.2_Missense_Mutation_p.P900T|WWC1_uc011den.1_Missense_Mutation_p.P900T|WWC1_uc003lzw.2_Missense_Mutation_p.P699T|WWC1_uc010jjf.1_Missense_Mutation_p.P172T	NM_015238	NP_056053	Q8IX03	KIBRA_HUMAN	WW and C2 domain containing 1 isoform 3	900	Interaction with histone H3.				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)		GGCCCCATCCCCCACAGTGGT	0.612													5	69	---	---	---	---	PASS
WWC1	23286	broad.mit.edu	37	5	167891727	167891727	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:167891727C>T	uc003lzu.2	+						WWC1_uc003lzv.2_Silent_p.P976P|WWC1_uc011den.1_Silent_p.P976P|WWC1_uc003lzw.2_Intron|WWC1_uc010jjf.1_Intron	NM_015238	NP_056053	Q8IX03	KIBRA_HUMAN	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)		CGTCCCCACCCCCACAGCCTT	0.597													12	24	---	---	---	---	PASS
DOCK2	1794	broad.mit.edu	37	5	169188553	169188553	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:169188553C>T	uc003maf.2	+	25	2558	c.2478C>T	c.(2476-2478)ATC>ATT	p.I826I	DOCK2_uc011der.1_RNA|DOCK2_uc010jjm.2_Silent_p.I318I	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	dedicator of cytokinesis 2	826					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)			ACACCTGCATCCCTCCTGTGA	0.488													29	97	---	---	---	---	PASS
DOCK2	1794	broad.mit.edu	37	5	169230217	169230217	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:169230217C>T	uc003maf.2	+						DOCK2_uc011der.1_Intron|DOCK2_uc010jjm.2_Intron	NM_004946	NP_004937	Q92608	DOCK2_HUMAN	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)			TGCGGTGAGTCCTCCTGATGA	0.448													18	28	---	---	---	---	PASS
FOXI1	2299	broad.mit.edu	37	5	169535120	169535120	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:169535120G>A	uc003mai.3	+	2	687	c.642G>A	c.(640-642)AGG>AGA	p.R214R	FOXI1_uc003maj.3_Intron	NM_012188	NP_036320	Q12951	FOXI1_HUMAN	forkhead box I1 isoform a	214	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)			ATTTCCGCAGGAAAAGGAAGA	0.493									Pendred_syndrome				32	25	---	---	---	---	PASS
KCNMB1	3779	broad.mit.edu	37	5	169805862	169805862	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:169805862C>T	uc003maq.1	-	4	822	c.422G>A	c.(421-423)GGG>GAG	p.G141E	KCNIP1_uc003map.2_Intron	NM_004137	NP_004128	Q16558	KCMB1_HUMAN	potassium large conductance calcium-activated	141	Extracellular (Potential).				platelet activation|synaptic transmission		calcium-activated potassium channel activity|potassium channel regulator activity			ovary(2)	2	Renal(175;0.000159)|Lung NSC(126;0.0165)|all_lung(126;0.026)	Medulloblastoma(196;0.0109)|all_neural(177;0.0146)	Kidney(164;7.53e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)	all cancers(165;0.175)		GGTTTCGTTCCCCCGAGGTGC	0.622													5	22	---	---	---	---	PASS
RANBP17	64901	broad.mit.edu	37	5	170323062	170323062	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:170323062G>A	uc003mba.2	+	5	448	c.432G>A	c.(430-432)GTG>GTA	p.V144V	RANBP17_uc003max.1_RNA|RANBP17_uc003may.1_RNA|RANBP17_uc003maz.1_RNA|RANBP17_uc010jjr.1_Intron|RANBP17_uc003maw.2_Silent_p.V144V|RANBP17_uc011dew.1_Silent_p.V144V	NM_022897	NP_075048	Q9H2T7	RBP17_HUMAN	RAN binding protein 17	144					mRNA transport|protein import into nucleus|transmembrane transport	cytoplasm|nuclear pore	GTP binding|protein transporter activity			ovary(2)|central_nervous_system(1)	3	Renal(175;0.000159)|Lung NSC(126;0.00751)|all_lung(126;0.0123)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			AGGGTACTGTGGAACACTGCA	0.373			T	TRD@	ALL								8	24	---	---	---	---	PASS
RANBP17	64901	broad.mit.edu	37	5	170692728	170692728	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:170692728C>T	uc003mba.2	+	25	2836	c.2820C>T	c.(2818-2820)ATC>ATT	p.I940I	RANBP17_uc003mbb.2_Silent_p.I265I|RANBP17_uc010jjs.2_RNA	NM_022897	NP_075048	Q9H2T7	RBP17_HUMAN	RAN binding protein 17	940					mRNA transport|protein import into nucleus|transmembrane transport	cytoplasm|nuclear pore	GTP binding|protein transporter activity			ovary(2)|central_nervous_system(1)	3	Renal(175;0.000159)|Lung NSC(126;0.00751)|all_lung(126;0.0123)	Medulloblastoma(196;0.0399)|all_neural(177;0.0966)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			TAGACTACATCGTCACCTACC	0.418			T	TRD@	ALL								28	61	---	---	---	---	PASS
SH3PXD2B	285590	broad.mit.edu	37	5	171766402	171766402	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:171766402G>A	uc003mbr.2	-	13	1878	c.1707C>T	c.(1705-1707)ATC>ATT	p.I569I		NM_001017995	NP_001017995	A1X283	SPD2B_HUMAN	SH3 and PX domains 2B	569					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)			GGGCTGGAGGGATGTGTTTGG	0.627													14	27	---	---	---	---	PASS
BNIP1	662	broad.mit.edu	37	5	172571570	172571570	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:172571570C>T	uc003mcj.3	+	1	126	c.22C>T	c.(22-24)CAC>TAC	p.H8Y	BNIP1_uc003mci.3_Missense_Mutation_p.H8Y|BNIP1_uc003mck.3_Missense_Mutation_p.H8Y|BNIP1_uc003mcl.3_Missense_Mutation_p.H8Y	NM_001205	NP_001196	Q12981	SEC20_HUMAN	BCL2/adenovirus E1B 19kD interacting protein 1	8	Cytoplasmic (Potential).				anti-apoptosis|apoptosis|endoplasmic reticulum membrane fusion|endoplasmic reticulum organization|induction of apoptosis|vesicle-mediated transport	integral to endoplasmic reticulum membrane|nuclear envelope|SNARE complex	protein binding			ovary(1)	1	Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	Medulloblastoma(196;0.0208)|all_neural(177;0.0416)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000183)			CCAAGACGTCCACGTCCGGAT	0.612											OREG0017054	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	11	---	---	---	---	PASS
CPLX2	10814	broad.mit.edu	37	5	175306946	175306946	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:175306946C>T	uc003mde.1	+	5	649	c.303C>T	c.(301-303)ATC>ATT	p.I101I	CPLX2_uc003mdf.1_Silent_p.I101I	NM_006650	NP_006641	Q6PUV4	CPLX2_HUMAN	complexin 2	101					mast cell degranulation|positive regulation of synaptic plasticity|vesicle docking involved in exocytosis	cytosol				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)			AGAAGGCCATCCCTGCGGGCT	0.627													4	7	---	---	---	---	PASS
CDHR2	54825	broad.mit.edu	37	5	175992417	175992417	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:175992417C>T	uc003mem.1	+						CDHR2_uc003men.1_Intron	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor						homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2						TAGGTGTCTCCCCTCCCCAGC	0.612													6	16	---	---	---	---	PASS
CDHR2	54825	broad.mit.edu	37	5	176016139	176016139	+	Silent	SNP	G	A	A	rs35355598	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:176016139G>A	uc003mem.1	+	22	3030	c.2964G>A	c.(2962-2964)TCG>TCA	p.S988S	CDHR2_uc003men.1_Silent_p.S988S	NM_017675	NP_060145	Q9BYE9	CDHR2_HUMAN	protocadherin LKC precursor	988	Extracellular (Potential).|Cadherin 9.				homophilic cell adhesion|negative regulation of cell growth	apical plasma membrane|cell junction|integral to membrane	calcium ion binding|protein binding			ovary(2)	2						GTGTCTTCTCGATCTTCACCT	0.597													23	141	---	---	---	---	PASS
SNCB	6620	broad.mit.edu	37	5	176047818	176047818	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:176047818C>T	uc003mep.2	-	7	842	c.399G>A	c.(397-399)GAG>GAA	p.E133E	SNCB_uc003meq.2_Silent_p.E133E	NM_001001502	NP_001001502	Q16143	SYUB_HUMAN	beta-synuclein	133							calcium ion binding|phospholipase inhibitor activity			ovary(1)	1	all_cancers(89;0.00222)|Renal(175;0.000269)|Lung NSC(126;0.00902)|all_lung(126;0.0142)	Medulloblastoma(196;0.00498)|all_neural(177;0.0212)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GCCCCTACGCCTCTGGCTCAT	0.607													11	21	---	---	---	---	PASS
SNCB	6620	broad.mit.edu	37	5	176048305	176048305	+	Splice_Site	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:176048305C>T	uc003mep.2	-	6	726	c.283_splice	c.e6-1	p.P95_splice	SNCB_uc003meq.2_Splice_Site_p.P95_splice|SNCB_uc010jke.1_Intron	NM_001001502	NP_001001502	Q16143	SYUB_HUMAN	beta-synuclein								calcium ion binding|phospholipase inhibitor activity			ovary(1)	1	all_cancers(89;0.00222)|Renal(175;0.000269)|Lung NSC(126;0.00902)|all_lung(126;0.0142)	Medulloblastoma(196;0.00498)|all_neural(177;0.0212)	Kidney(164;3.85e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			CTTCCTCTGGCTGTGGGCAGA	0.597													3	6	---	---	---	---	PASS
HK3	3101	broad.mit.edu	37	5	176316539	176316539	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:176316539C>T	uc003mfa.2	-	8	849	c.757G>A	c.(757-759)GAG>AAG	p.E253K	HK3_uc003mez.2_5'UTR	NM_002115	NP_002106	P52790	HXK3_HUMAN	hexokinase 3	253	Regulatory.				glucose transport|glycolysis|transmembrane transport	cytosol|membrane	ATP binding|glucokinase activity			ovary(3)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)|breast(1)|skin(1)	7	all_cancers(89;0.000104)|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)			CGTGCCTCCTCCATGTAACAC	0.632													15	13	---	---	---	---	PASS
NSD1	64324	broad.mit.edu	37	5	176638381	176638381	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:176638381C>T	uc003mfr.3	+	5	3119	c.2981C>T	c.(2980-2982)TCC>TTC	p.S994F	NSD1_uc003mft.3_Missense_Mutation_p.S725F|NSD1_uc003mfs.1_Missense_Mutation_p.S891F|NSD1_uc011dfx.1_Missense_Mutation_p.S642F	NM_022455	NP_071900	Q96L73	NSD1_HUMAN	nuclear receptor binding SET domain protein 1	994					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)		TTGTCTGCTTCCCTACCTGGC	0.512			T	NUP98	AML		Sotos Syndrome		Beckwith-Wiedemann_syndrome|Sotos_syndrome|Weaver_syndrome	HNSCC(47;0.14)			20	62	---	---	---	---	PASS
SLC34A1	6569	broad.mit.edu	37	5	176824994	176824994	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:176824994G>A	uc003mgk.3	+	13	1728	c.1627G>A	c.(1627-1629)GGT>AGT	p.G543S		NM_003052	NP_003043	Q06495	NPT2A_HUMAN	solute carrier family 34 (sodium phosphate),	543	Helical; Name=M8; (Potential).				phosphate ion homeostasis|response to cadmium ion|response to lead ion|response to mercury ion|sodium ion transport	brush border membrane|integral to plasma membrane	protein binding|sodium-dependent phosphate transmembrane transporter activity|symporter activity			ovary(1)	1	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)			GGTCATGGTAGGTGTGGGCAC	0.607													7	28	---	---	---	---	PASS
COL23A1	91522	broad.mit.edu	37	5	177666180	177666180	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:177666180C>T	uc003mje.2	-	28	1940	c.1582G>A	c.(1582-1584)GGC>AGC	p.G528S	COL23A1_uc010jkt.2_Missense_Mutation_p.G410S	NM_173465	NP_775736	Q86Y22	CONA1_HUMAN	collagen, type XXIII, alpha 1	528	Extracellular (Potential).|Gly-rich.					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)		CCGTCGGGGCCCTGGAAAGGA	0.657													8	20	---	---	---	---	PASS
COL23A1	91522	broad.mit.edu	37	5	177674563	177674563	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:177674563G>A	uc003mje.2	-						COL23A1_uc010jkt.2_Intron	NM_173465	NP_775736	Q86Y22	CONA1_HUMAN	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)		CCTGCAGGAGGAGGAAGCAGA	0.642													5	17	---	---	---	---	PASS
ZNF454	285676	broad.mit.edu	37	5	178391721	178391721	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:178391721G>A	uc003mjo.1	+	5	587	c.316G>A	c.(316-318)GAT>AAT	p.D106N	ZNF454_uc010jkz.1_Missense_Mutation_p.D106N	NM_182594	NP_872400	Q8N9F8	ZN454_HUMAN	zinc finger protein 454	106					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|lung(1)	3	all_cancers(89;0.000904)|Renal(175;0.000159)|all_epithelial(37;0.000167)|Lung NSC(126;0.00199)|all_lung(126;0.00351)	all_cancers(40;0.225)|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;0.234)		AGAAGAATTGGATCAATGGAC	0.428													6	40	---	---	---	---	PASS
GRM6	2916	broad.mit.edu	37	5	178413751	178413751	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:178413751C>T	uc003mjr.2	-	8	1683	c.1504G>A	c.(1504-1506)GAG>AAG	p.E502K	GRM6_uc003mjq.2_5'Flank|GRM6_uc010jla.1_Missense_Mutation_p.E85K|GRM6_uc003mjs.1_Missense_Mutation_p.E122K	NM_000843	NP_000834	O15303	GRM6_HUMAN	glutamate receptor, metabotropic 6 precursor	502	Extracellular (Potential).				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)		TGCAGGGCCTCCACCTGGGAC	0.687													4	19	---	---	---	---	PASS
TBC1D9B	23061	broad.mit.edu	37	5	179302150	179302150	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:179302150C>T	uc003mlh.2	-	12	1975	c.1938G>A	c.(1936-1938)ACG>ACA	p.T646T	TBC1D9B_uc003mli.2_Silent_p.T646T|TBC1D9B_uc003mlj.2_Silent_p.T646T|TBC1D9B_uc011dgv.1_5'Flank	NM_198868	NP_942568	Q66K14	TBC9B_HUMAN	TBC1 domain family, member 9B (with GRAM domain)	646	Rab-GAP TBC.					integral to membrane|intracellular	calcium ion binding|Rab GTPase activator activity			breast(1)|skin(1)	2	all_cancers(89;0.000197)|all_epithelial(37;6.84e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0236)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GGAAGTCTCTCGTGAGCTCTT	0.632													7	30	---	---	---	---	PASS
TBC1D9B	23061	broad.mit.edu	37	5	179306200	179306200	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:179306200G>A	uc003mlh.2	-						TBC1D9B_uc003mli.2_Intron|TBC1D9B_uc003mlj.2_Intron	NM_198868	NP_942568	Q66K14	TBC9B_HUMAN	TBC1 domain family, member 9B (with GRAM domain)							integral to membrane|intracellular	calcium ion binding|Rab GTPase activator activity			breast(1)|skin(1)	2	all_cancers(89;0.000197)|all_epithelial(37;6.84e-05)|Renal(175;0.000159)|Lung NSC(126;0.00136)|all_lung(126;0.00243)	all_cancers(40;0.0236)|Medulloblastoma(196;0.00498)|all_neural(177;0.0138)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			TCCTTGGCCTGAGGGAAAAGC	0.622													4	1	---	---	---	---	PASS
GFPT2	9945	broad.mit.edu	37	5	179765571	179765571	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:179765571G>A	uc003mlw.1	-	2	135	c.37C>T	c.(37-39)CCC>TCC	p.P13S		NM_005110	NP_005101	O94808	GFPT2_HUMAN	glutamine-fructose-6-phosphate transaminase 2	13	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)	CTCGTCCGGGGGACTCTGTAG	0.532													5	16	---	---	---	---	PASS
FLT4	2324	broad.mit.edu	37	5	180047186	180047186	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:180047186C>T	uc003mma.3	-	17	2608	c.2529G>A	c.(2527-2529)GAG>GAA	p.E843E	FLT4_uc003mlz.3_Silent_p.E843E|FLT4_uc003mmb.1_Silent_p.E376E	NM_002020	NP_002011	P35916	VGFR3_HUMAN	fms-related tyrosine kinase 4 isoform 2	843	Cytoplasmic (Potential).				positive regulation of cell proliferation	integral to plasma membrane	ATP binding|protein phosphatase binding|vascular endothelial growth factor receptor activity			lung(7)|skin(2)|ovary(2)|stomach(1)|central_nervous_system(1)|breast(1)|kidney(1)	15	all_cancers(89;2.21e-05)|all_epithelial(37;5.29e-06)|Renal(175;0.000159)|Lung NSC(126;0.00199)|all_lung(126;0.00351)|Breast(19;0.114)	all_cancers(40;0.00245)|Medulloblastoma(196;0.0133)|all_neural(177;0.0199)|all_hematologic(541;0.163)|Ovarian(839;0.238)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)	all cancers(165;0.134)	Sorafenib(DB00398)|Sunitinib(DB01268)	GGTGCAGCCGCTCTCGGGGGA	0.637									Congenital_Hereditary_Lymphedema				12	13	---	---	---	---	PASS
OR2Y1	134083	broad.mit.edu	37	5	180166858	180166858	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:180166858G>A	uc003mmf.1	-	1	201	c.201C>T	c.(199-201)TCC>TCT	p.S67S		NM_001001657	NP_001001657	Q8NGV0	OR2Y1_HUMAN	olfactory receptor, family 2, subfamily Y,	67	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(89;1.25e-05)|all_epithelial(37;4.36e-06)|Renal(175;0.000159)|Lung NSC(126;0.00317)|all_lung(126;0.0041)|Breast(19;0.114)	all_cancers(40;0.0834)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.191)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GGTCCAGGAGGGACAGATGAG	0.572													11	32	---	---	---	---	PASS
BTNL8	79908	broad.mit.edu	37	5	180377022	180377022	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:180377022G>A	uc003mmp.2	+	8	1215	c.981G>A	c.(979-981)AGG>AGA	p.R327R	BTNL8_uc003mmq.2_3'UTR|BTNL8_uc011dhg.1_Silent_p.R202R|BTNL8_uc010jll.2_3'UTR|BTNL8_uc010jlm.2_Silent_p.R211R|BTNL8_uc011dhh.1_Silent_p.R143R	NM_001040462	NP_001035552	Q6UX41	BTNL8_HUMAN	butyrophilin-like 8 isoform 2 precursor	327	B30.2/SPRY.|Cytoplasmic (Potential).					integral to membrane				upper_aerodigestive_tract(1)|skin(1)	2	all_cancers(89;3.37e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.0801)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.191)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GATTTACAAGGAAGAGTGTGG	0.527													15	37	---	---	---	---	PASS
BTNL9	153579	broad.mit.edu	37	5	180475255	180475255	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:180475255G>A	uc003mmt.2	+	3	669	c.438G>A	c.(436-438)TGG>TGA	p.W146*	BTNL9_uc011dhi.1_Nonsense_Mutation_p.W77*	NM_152547	NP_689760	Q6UXG8	BTNL9_HUMAN	butyrophilin-like 9 precursor	146	Extracellular (Potential).					integral to membrane				ovary(1)|central_nervous_system(1)	2	all_cancers(89;2.45e-05)|all_epithelial(37;3.77e-06)|Renal(175;0.000159)|Lung NSC(126;0.00211)|all_lung(126;0.00371)|Breast(19;0.114)	all_cancers(40;0.0801)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.191)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			AAGCTCTCTGGGAACTGGAGG	0.572													6	17	---	---	---	---	PASS
OR2V2	285659	broad.mit.edu	37	5	180582831	180582831	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:180582831G>A	uc011dhj.1	+	1	889	c.889G>A	c.(889-891)GAG>AAG	p.E297K		NM_206880	NP_996763	Q96R30	OR2V2_HUMAN	olfactory receptor, family 2, subfamily V,	297	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)	2	all_cancers(89;8.26e-06)|all_epithelial(37;1.02e-06)|Renal(175;0.000159)|Lung NSC(126;0.00354)|all_lung(126;0.00609)|Breast(19;0.0684)	all_cancers(40;0.0103)|Medulloblastoma(196;0.0392)|all_neural(177;0.0529)|all_hematologic(541;0.0652)|all_lung(500;0.149)	Kidney(164;2.23e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000178)			GAGGAACAGGGAGGTGATGGG	0.532													7	25	---	---	---	---	PASS
FOXC1	2296	broad.mit.edu	37	6	1611181	1611181	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:1611181C>T	uc003mtp.2	+	1	501	c.501C>T	c.(499-501)TTC>TTT	p.F167F		NM_001453	NP_001444	Q12948	FOXC1_HUMAN	forkhead box C1	167	Fork-head.				anti-apoptosis|artery morphogenesis|blood vessel remodeling|brain development|camera-type eye development|cardiac muscle cell proliferation|collagen fibril organization|embryonic heart tube development|germ cell migration|glycosaminoglycan metabolic process|lacrimal gland development|lymphangiogenesis|metanephros development|negative regulation of mitotic cell cycle|neural crest cell fate commitment|Notch signaling pathway|odontogenesis of dentine-containing tooth|ossification|ovarian follicle development|paraxial mesodermal cell fate commitment|positive regulation of transcription from RNA polymerase II promoter|regulation of blood vessel size|regulation of organ growth|regulation of sequence-specific DNA binding transcription factor activity|somitogenesis|ureteric bud development|vascular endothelial growth factor receptor signaling pathway|vasculogenesis|ventricular cardiac muscle tissue morphogenesis	nuclear heterochromatin|transcription factor complex	chromatin DNA binding|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			ovary(1)	1	Ovarian(93;0.0733)	all_cancers(2;4.45e-07)|all_epithelial(2;4.33e-05)|all_lung(73;0.0713)|all_hematologic(90;0.0895)		Epithelial(2;0.0904)|OV - Ovarian serous cystadenocarcinoma(45;0.095)|all cancers(2;0.168)		ACGGCAGCTTCCTGCGGCGGC	0.552													8	28	---	---	---	---	PASS
SERPINB6	5269	broad.mit.edu	37	6	2948542	2948542	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:2948542G>A	uc003muk.2	-	6	3116	c.1121C>T	c.(1120-1122)TCC>TTC	p.S374F	SERPINB6_uc003mui.2_Missense_Mutation_p.S257F|SERPINB6_uc003muj.2_RNA|SERPINB6_uc003mul.2_Missense_Mutation_p.S374F|SERPINB6_uc003mum.2_Missense_Mutation_p.S374F|SERPINB6_uc003mun.2_Missense_Mutation_p.S374F|SERPINB6_uc003muo.2_Missense_Mutation_p.S374F	NM_004568	NP_004559	P35237	SPB6_HUMAN	serine (or cysteine) proteinase inhibitor, clade	374					regulation of proteolysis	centrosome|cytosol|protein complex	protease binding|serine-type endopeptidase inhibitor activity				0	Ovarian(93;0.0412)	all_hematologic(90;0.0895)			Drotrecogin alfa(DB00055)	TCACGGAGAGGAAAAGCGGCC	0.602													15	21	---	---	---	---	PASS
RREB1	6239	broad.mit.edu	37	6	7231821	7231821	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:7231821C>T	uc003mxc.2	+	10	3879	c.3489C>T	c.(3487-3489)CCC>CCT	p.P1163P	RREB1_uc003mxb.2_Silent_p.P1163P|RREB1_uc010jnx.2_Silent_p.P1163P	NM_001003698	NP_001003698	Q92766	RREB1_HUMAN	ras responsive element binding protein 1 isoform	1163					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)				GGAGCCGACCCCGCGCCAACA	0.667													4	5	---	---	---	---	PASS
RREB1	6239	broad.mit.edu	37	6	7231916	7231916	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:7231916C>T	uc003mxc.2	+	10	3974	c.3584C>T	c.(3583-3585)CCG>CTG	p.P1195L	RREB1_uc003mxb.2_Missense_Mutation_p.P1195L|RREB1_uc010jnx.2_Missense_Mutation_p.P1195L	NM_001003698	NP_001003698	Q92766	RREB1_HUMAN	ras responsive element binding protein 1 isoform	1195					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)				AAGTTCAGTCCGTTTCTGCAG	0.637													5	20	---	---	---	---	PASS
EEF1E1	9521	broad.mit.edu	37	6	8102763	8102763	+	5'UTR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:8102763C>T	uc003mxz.2	-	1					EEF1E1_uc011dic.1_5'UTR	NM_004280	NP_004271	O43324	MCA3_HUMAN	eukaryotic translation elongation factor 1						negative regulation of cell proliferation|positive regulation of apoptosis|positive regulation of DNA damage response, signal transduction by p53 class mediator|tRNA aminoacylation for protein translation	cytosol|nucleus					0	Ovarian(93;0.0398)					ATCTTCCGGCCGTAGCTCCTG	0.587													5	20	---	---	---	---	PASS
GCNT2	2651	broad.mit.edu	37	6	10529189	10529189	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:10529189C>T	uc010joo.2	+	3	596	c.45C>T	c.(43-45)ATC>ATT	p.I15I	GCNT2_uc010jol.2_Intron|GCNT2_uc010jom.2_Intron|GCNT2_uc010jop.2_Intron|GCNT2_uc003mza.2_Intron|GCNT2_uc003mzc.3_Silent_p.I14I|GCNT2_uc010jon.2_Silent_p.I14I	NM_145649	NP_663624	Q8N0V5	GNT2A_HUMAN	glucosaminyl (N-acetyl) transferase 2,	15	Helical; Signal-anchor for type II membrane protein; (Potential).					Golgi membrane|integral to membrane	N-acetyllactosaminide beta-1,6-N-acetylglucosaminyltransferase activity	p.S15N(1)		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)		CGTCTCTTATCTCTGCCCTGA	0.413													16	35	---	---	---	---	PASS
GCNT2	2651	broad.mit.edu	37	6	10529190	10529190	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:10529190T>A	uc010joo.2	+	3	597	c.46T>A	c.(46-48)TCT>ACT	p.S16T	GCNT2_uc010jol.2_Intron|GCNT2_uc010jom.2_Intron|GCNT2_uc010jop.2_Intron|GCNT2_uc003mza.2_Intron|GCNT2_uc003mzc.3_Missense_Mutation_p.S15T|GCNT2_uc010jon.2_Missense_Mutation_p.S15T	NM_145649	NP_663624	Q8N0V5	GNT2A_HUMAN	glucosaminyl (N-acetyl) transferase 2,	16	Helical; Signal-anchor for type II membrane protein; (Potential).					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)		GTCTCTTATCTCTGCCCTGAT	0.418													16	35	---	---	---	---	PASS
HIVEP1	3096	broad.mit.edu	37	6	12164203	12164203	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:12164203C>T	uc003nac.2	+	9	7845	c.7666C>T	c.(7666-7668)CCC>TCC	p.P2556S	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	2556					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)				CACCTTAATCCCCTCAGTCAG	0.532													16	32	---	---	---	---	PASS
HIVEP1	3096	broad.mit.edu	37	6	12164204	12164204	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:12164204C>T	uc003nac.2	+	9	7846	c.7667C>T	c.(7666-7668)CCC>CTC	p.P2556L	HIVEP1_uc011diq.1_RNA	NM_002114	NP_002105	P15822	ZEP1_HUMAN	human immunodeficiency virus type I enhancer	2556					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)				ACCTTAATCCCCTCAGTCAGT	0.532													16	31	---	---	---	---	PASS
EDN1	1906	broad.mit.edu	37	6	12292569	12292569	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:12292569C>T	uc003nae.3	+						EDN1_uc010jpb.2_Intron|EDN1_uc003nad.2_Intron|EDN1_uc003naf.3_Intron	NM_001955	NP_001946	P05305	EDN1_HUMAN	endothelin 1 precursor						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)				TCTTTCTCTCCCCAGCAGTCT	0.602													39	69	---	---	---	---	PASS
JARID2	3720	broad.mit.edu	37	6	15496635	15496635	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:15496635C>T	uc003nbj.2	+	7	1423	c.1179C>T	c.(1177-1179)CTC>CTT	p.L393L	JARID2_uc011diu.1_Silent_p.L257L|JARID2_uc011div.1_Silent_p.L221L|JARID2_uc011diw.1_Silent_p.L355L	NM_004973	NP_004964	Q92833	JARD2_HUMAN	jumonji, AT rich interactive domain 2 protein	393					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)				TGCTATCCCTCGGGGGGGCGT	0.577													29	36	---	---	---	---	PASS
CAP2	10486	broad.mit.edu	37	6	17543180	17543180	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:17543180C>T	uc003ncb.2	+	10	1358	c.1115C>T	c.(1114-1116)TCC>TTC	p.S372F	CAP2_uc010jpk.1_RNA|CAP2_uc011dja.1_Missense_Mutation_p.S346F|CAP2_uc011djb.1_Missense_Mutation_p.S308F|CAP2_uc011djc.1_Missense_Mutation_p.S260F|CAP2_uc011djd.1_Missense_Mutation_p.S112F	NM_006366	NP_006357	P40123	CAP2_HUMAN	adenylyl cyclase-associated protein 2	372	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)			AAAGTAAACTCCATTATAATT	0.333													31	57	---	---	---	---	PASS
KIF13A	63971	broad.mit.edu	37	6	17809080	17809080	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:17809080G>A	uc003ncg.3	-	18	2187	c.2082C>T	c.(2080-2082)TTC>TTT	p.F694F	KIF13A_uc003ncf.2_Silent_p.F694F|KIF13A_uc003nch.3_Silent_p.F694F|KIF13A_uc003nci.3_Silent_p.F694F	NM_022113	NP_071396	Q9H1H9	KI13A_HUMAN	kinesin family member 13A isoform a	694	Potential.				cargo loading into vesicle|cell cycle|cytokinesis|endosome to lysosome transport|Golgi to plasma membrane protein transport|melanosome organization|plus-end-directed vesicle transport along microtubule	centrosome|endosome membrane|microtubule|midbody|trans-Golgi network membrane	ATP binding|microtubule motor activity|protein binding			large_intestine(2)|ovary(2)	4	Breast(50;0.0107)|Ovarian(93;0.016)	all_hematologic(90;0.125)	all cancers(50;0.0865)|Epithelial(50;0.0974)			CCTCAGCCAGGAAGTTTGCTT	0.473													16	22	---	---	---	---	PASS
DCDC2	51473	broad.mit.edu	37	6	24278332	24278332	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:24278332C>T	uc003ndx.2	-	7	1169	c.867G>A	c.(865-867)ACG>ACA	p.T289T	DCDC2_uc003ndy.2_Silent_p.T289T	NM_016356	NP_057440	Q9UHG0	DCDC2_HUMAN	doublecortin domain containing 2	289					cellular defense response|intracellular signal transduction|neuron migration					ovary(1)	1		Ovarian(999;0.101)				GTTTCAATTTCGTCAGTTTTT	0.348													9	16	---	---	---	---	PASS
ALDH5A1	7915	broad.mit.edu	37	6	24505195	24505195	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:24505195C>T	uc003neg.2	+	4	736	c.708C>T	c.(706-708)TCC>TCT	p.S236S	ALDH5A1_uc003nef.2_Silent_p.S236S	NM_001080	NP_001071	P51649	SSDH_HUMAN	aldehyde dehydrogenase 5A1 isoform 2 precursor	236					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)	CGCCCTTCTCCGCCCTGGCCC	0.557													13	25	---	---	---	---	PASS
C6orf62	81688	broad.mit.edu	37	6	24714623	24714623	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:24714623G>A	uc003nel.2	-	3	859	c.352C>T	c.(352-354)CGG>TGG	p.R118W		NM_030939	NP_112201	Q9GZU0	CF062_HUMAN	hypothetical protein LOC81688	118						intracellular					0						ATATCATTCCGAGGCCAAAGA	0.348													29	43	---	---	---	---	PASS
SLC17A3	10786	broad.mit.edu	37	6	25850059	25850059	+	Nonsense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:25850059A>T	uc003nfi.3	-	9	1121	c.1011T>A	c.(1009-1011)TAT>TAA	p.Y337*	SLC17A3_uc003nfk.3_Nonsense_Mutation_p.Y415*	NM_006632	NP_006623	O00476	NPT4_HUMAN	solute carrier family 17 (sodium phosphate),	337	Helical; (Potential).				glucose-6-phosphate transport|urate metabolic process	apical plasma membrane|brush border membrane|endoplasmic reticulum membrane|integral to plasma membrane|perinuclear region of cytoplasm	drug transmembrane transporter activity|efflux transmembrane transporter activity|organic anion transmembrane transporter activity|sodium:phosphate symporter activity|toxin transporter activity|urate transmembrane transporter activity|voltage-gated anion channel activity				0						AGACATTGATATAAATCCCTG	0.423													19	27	---	---	---	---	PASS
BTN3A1	11119	broad.mit.edu	37	6	26406243	26406243	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:26406243G>A	uc003nhv.2	+	3	560	c.192G>A	c.(190-192)GAG>GAA	p.E64E	BTN3A1_uc011dkj.1_Silent_p.E64E|BTN3A1_uc011dkk.1_Silent_p.E64E|BTN3A1_uc010jqj.2_Silent_p.E64E	NM_007048	NP_008979	O00481	BT3A1_HUMAN	butyrophilin, subfamily 3, member A1 isoform a	64	Ig-like V-type 1.|Extracellular (Potential).				lipid metabolic process	integral to membrane				upper_aerodigestive_tract(1)|ovary(1)	2						AGACCATGGAGCTGAAGTGGG	0.562													40	44	---	---	---	---	PASS
BTN3A3	10384	broad.mit.edu	37	6	26444264	26444264	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:26444264C>T	uc003nhz.2	+	4	345	c.165C>T	c.(163-165)TTC>TTT	p.F55F	BTN3A3_uc003nia.2_Silent_p.F13F|BTN3A3_uc011dkn.1_Silent_p.F13F	NM_006994	NP_008925	O00478	BT3A3_HUMAN	butyrophilin, subfamily 3, member A3 isoform a	55	Extracellular (Potential).|Ig-like V-type 1.					integral to membrane					0						GTCACCTGTTCCCGACCATGA	0.577													38	76	---	---	---	---	PASS
BTN2A1	11120	broad.mit.edu	37	6	26458857	26458857	+	5'UTR	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:26458857G>T	uc003nib.1	+	2					BTN2A1_uc003nic.1_5'UTR|BTN2A1_uc003nid.1_5'UTR|BTN2A1_uc011dko.1_Intron	NM_007049	NP_008980	Q7KYR7	BT2A1_HUMAN	butyrophilin, subfamily 2, member A1 isoform 1						lipid metabolic process	integral to plasma membrane				ovary(1)|skin(1)	2						TGCCTGCTCTGGGTGCTCATG	0.617													5	75	---	---	---	---	PASS
ZKSCAN4	387032	broad.mit.edu	37	6	28213072	28213072	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:28213072T>G	uc003nks.1	-	5	1704	c.1460A>C	c.(1459-1461)TAT>TCT	p.Y487S	ZKSCAN4_uc011dlb.1_Missense_Mutation_p.Y332S	NM_019110	NP_061983	Q969J2	ZKSC4_HUMAN	zinc finger with KRAB and SCAN domains 4	487	C2H2-type 6.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)	1						ATTACATTTATAAGACACGGG	0.443													28	45	---	---	---	---	PASS
SCAND3	114821	broad.mit.edu	37	6	28541122	28541122	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:28541122G>A	uc003nlo.2	-	4	3162	c.2544C>T	c.(2542-2544)ATC>ATT	p.I848I		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	848					DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						aaacttctttgatgcagtctt	0.000													35	77	---	---	---	---	PASS
SCAND3	114821	broad.mit.edu	37	6	28541310	28541310	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:28541310C>T	uc003nlo.2	-	4	2974	c.2356G>A	c.(2356-2358)GAA>AAA	p.E786K		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	786					DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						gaacttatttctttatgtttt	0.000													10	32	---	---	---	---	PASS
SCAND3	114821	broad.mit.edu	37	6	28543804	28543804	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:28543804G>A	uc003nlo.2	-	3	1296	c.678C>T	c.(676-678)TTC>TTT	p.F226F		NM_052923	NP_443155	Q6R2W3	SCND3_HUMAN	SCAN domain containing 3	226					DNA integration|viral reproduction	nucleus	DNA binding|protein dimerization activity|sequence-specific DNA binding transcription factor activity			ovary(1)	1						AGCTTCTGAAGAACTTTTCTC	0.348													16	38	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	6	29231725	29231725	+	IGR	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:29231725G>A								OR2J2 (89375 upstream) : OR14J1 (42742 downstream)																							ATGGCAGCAGGATAAGGACCA	0.423													20	76	---	---	---	---	PASS
OR5V1	81696	broad.mit.edu	37	6	29323094	29323094	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:29323094C>T	uc011dlo.1	-	1	961	c.879G>A	c.(877-879)AGG>AGA	p.R293R		NM_030876	NP_110503	Q9UGF6	OR5V1_HUMAN	olfactory receptor, family 5, subfamily V,	293	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|kidney(1)	4						TGTCCTTATTCCTCAATGTGT	0.403													30	67	---	---	---	---	PASS
OR10C1	442194	broad.mit.edu	37	6	29407862	29407862	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:29407862G>A	uc011dlp.1	+	1	70	c.70G>A	c.(70-72)GGC>AGC	p.G24S	OR11A1_uc010jrh.1_Intron	NM_013941	NP_039229	Q96KK4	O10C1_HUMAN	olfactory receptor, family 10, subfamily C,	24	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CGACCTCCAGGGCTTGCTCTT	0.542													18	41	---	---	---	---	PASS
OR10C1	442194	broad.mit.edu	37	6	29407863	29407863	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:29407863G>A	uc011dlp.1	+	1	71	c.71G>A	c.(70-72)GGC>GAC	p.G24D	OR11A1_uc010jrh.1_Intron	NM_013941	NP_039229	Q96KK4	O10C1_HUMAN	olfactory receptor, family 10, subfamily C,	24	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GACCTCCAGGGCTTGCTCTTC	0.542													18	42	---	---	---	---	PASS
OR2H1	26716	broad.mit.edu	37	6	29429658	29429658	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:29429658G>A	uc003nmi.2	+	3	555	c.112G>A	c.(112-114)GTG>ATG	p.V38M	OR2H1_uc003nmj.1_Missense_Mutation_p.V38M|OR2H1_uc010jri.1_Intron	NM_030883	NP_112145	Q9GZK4	OR2H1_HUMAN	olfactory receptor, family 2, subfamily H,	38	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						CTTGACCCTGGTGGGCAACAC	0.527													35	69	---	---	---	---	PASS
PPP1R10	5514	broad.mit.edu	37	6	30577617	30577617	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:30577617G>A	uc003nqn.1	-	3	657	c.105C>T	c.(103-105)TTC>TTT	p.F35F	PPP1R10_uc010jsc.1_5'UTR	NM_002714	NP_002705	Q96QC0	PP1RA_HUMAN	protein phosphatase 1, regulatory subunit 10	35	Interaction with TOX4 (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						AGACTCACCTGAAGATCTTGG	0.463													20	43	---	---	---	---	PASS
MDC1	9656	broad.mit.edu	37	6	30672562	30672562	+	Silent	SNP	G	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:30672562G>C	uc003nrg.3	-	10	4838	c.4398C>G	c.(4396-4398)ACC>ACG	p.T1466T	MDC1_uc003nrf.3_Intron|MDC1_uc011dmp.1_Silent_p.T1073T	NM_014641	NP_055456	Q14676	MDC1_HUMAN	mediator of DNA-damage checkpoint 1	1466	Pro-rich.|Interaction with the PRKDC complex.				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						TAGGCTCAGGGGTAACAGGCT	0.572								Other_conserved_DNA_damage_response_genes					38	87	---	---	---	---	PASS
VARS2	57176	broad.mit.edu	37	6	30891143	30891143	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:30891143C>T	uc003nsc.1	+	24	2959	c.2327C>T	c.(2326-2328)TCC>TTC	p.S776F	VARS2_uc011dmx.1_Missense_Mutation_p.S776F|VARS2_uc011dmy.1_Missense_Mutation_p.S636F|VARS2_uc011dmz.1_Missense_Mutation_p.S806F|VARS2_uc011dna.1_Missense_Mutation_p.S774F|VARS2_uc011dnb.1_RNA|VARS2_uc011dnc.1_RNA|VARS2_uc011dnd.1_Missense_Mutation_p.S214F|VARS2_uc010jsg.1_Missense_Mutation_p.S148F|VARS2_uc010jsh.1_5'UTR	NM_020442	NP_065175	Q5ST30	SYVM_HUMAN	valyl-tRNA synthetase 2, mitochondrial	776					valyl-tRNA aminoacylation	mitochondrion	ATP binding|valine-tRNA ligase activity			ovary(3)|central_nervous_system(1)	4						TCTCCCTCCTCCCCGATGGAT	0.662													12	26	---	---	---	---	PASS
MICB	4277	broad.mit.edu	37	6	31475280	31475280	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31475280G>A	uc003ntn.3	+	5	1112	c.996G>A	c.(994-996)AAG>AAA	p.K332K	MICB_uc011dnm.1_Silent_p.K300K|MICB_uc003nto.3_Silent_p.K289K	NM_005931	NP_005922	Q29980	MICB_HUMAN	MHC class I polypeptide-related sequence B	332	Cytoplasmic (Potential).				antigen processing and presentation|cytolysis|gamma-delta T cell activation|immune response|immune response-activating cell surface receptor signaling pathway|interspecies interaction between organisms|negative regulation of defense response to virus by host|response to heat|response to oxidative stress|response to retinoic acid	integral to plasma membrane|MHC class I protein complex	natural killer cell lectin-like receptor binding				0						CTTGTTGCAAGAAGAAAACAT	0.473													15	28	---	---	---	---	PASS
BAT2	7916	broad.mit.edu	37	6	31590630	31590630	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31590630C>T	uc003nvb.3	+	2	313	c.64C>T	c.(64-66)CTG>TTG	p.L22L	BAT2_uc011dnv.1_RNA|BAT2_uc003nvc.3_Silent_p.L22L|SNORA38_uc003nvd.2_5'Flank|BAT2_uc003nve.2_5'Flank	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	22						cytoplasm|nucleus	protein binding				0						CTCGCTCAACCTGTTTGATAC	0.517													4	175	---	---	---	---	PASS
BAT2	7916	broad.mit.edu	37	6	31603799	31603799	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31603799C>T	uc003nvb.3	+	25	5846	c.5597C>T	c.(5596-5598)CCT>CTT	p.P1866L	BAT2_uc003nvc.3_Missense_Mutation_p.P1866L	NM_080686	NP_542417	P48634	PRC2A_HUMAN	HLA-B associated transcript-2	1866						cytoplasm|nucleus	protein binding				0						GGCTTCCGCCCTGGGACACCC	0.537													17	25	---	---	---	---	PASS
BAT4	7918	broad.mit.edu	37	6	31631763	31631763	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31631763G>A	uc003nvn.2	-	2	1138	c.493C>T	c.(493-495)CGT>TGT	p.R165C	BAT4_uc003nvo.3_Missense_Mutation_p.R165C|BAT4_uc003nvp.3_Missense_Mutation_p.R165C|BAT4_uc003nvq.2_Missense_Mutation_p.R165C|CSNK2B_uc010jsz.1_5'Flank|CSNK2B_uc010jta.1_5'Flank|CSNK2B_uc003nvr.1_5'Flank|CSNK2B_uc003nvs.1_5'Flank	NM_033177	NP_149417	O95872	GPAN1_HUMAN	HLA-B associated transcript 4	165	ANK 2.					intracellular	nucleic acid binding				0						GCAGCCCCACGGCCCAGGAGA	0.657													20	24	---	---	---	---	PASS
BAT4	7918	broad.mit.edu	37	6	31631764	31631764	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31631764G>A	uc003nvn.2	-	2	1137	c.492C>T	c.(490-492)GGC>GGT	p.G164G	BAT4_uc003nvo.3_Silent_p.G164G|BAT4_uc003nvp.3_Silent_p.G164G|BAT4_uc003nvq.2_Silent_p.G164G|CSNK2B_uc010jsz.1_5'Flank|CSNK2B_uc010jta.1_5'Flank|CSNK2B_uc003nvr.1_5'Flank|CSNK2B_uc003nvs.1_5'Flank	NM_033177	NP_149417	O95872	GPAN1_HUMAN	HLA-B associated transcript 4	164	ANK 2.					intracellular	nucleic acid binding				0						CAGCCCCACGGCCCAGGAGAT	0.662													19	24	---	---	---	---	PASS
LY6G6F	259215	broad.mit.edu	37	6	31675746	31675746	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31675746G>A	uc003nwa.1	+	3	481	c.481G>A	c.(481-483)GAA>AAA	p.E161K	BAT5_uc011dnz.1_Intron|LY6G6F_uc003nwb.1_Missense_Mutation_p.E161K	NM_001003693	NP_001003693	Q5SQ64	LY66F_HUMAN	G6f protein precursor	161	Extracellular (Potential).					integral to membrane|plasma membrane				breast(1)|central_nervous_system(1)	2						GACCTGGCAGGAAGGGAAGGG	0.622													18	48	---	---	---	---	PASS
VARS	7407	broad.mit.edu	37	6	31753355	31753355	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31753355C>T	uc003nxe.2	-	9	1679	c.1256G>A	c.(1255-1257)TGG>TAG	p.W419*	VARS_uc011doi.1_RNA	NM_006295	NP_006286	P26640	SYVC_HUMAN	valyl-tRNA synthetase	419					translational elongation|valyl-tRNA aminoacylation	cytosol	ATP binding|protein binding|valine-tRNA ligase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3					L-Valine(DB00161)	CTCCTCCTTCCACTTCCAGAC	0.607													4	10	---	---	---	---	PASS
VARS	7407	broad.mit.edu	37	6	31760835	31760835	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31760835G>A	uc003nxe.2	-	3	873	c.450C>T	c.(448-450)ACC>ACT	p.T150T	VARS_uc011doi.1_Intron	NM_006295	NP_006286	P26640	SYVC_HUMAN	valyl-tRNA synthetase	150	GST C-terminal.				translational elongation|valyl-tRNA aminoacylation	cytosol	ATP binding|protein binding|valine-tRNA ligase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3					L-Valine(DB00161)	CGGCCAAGTAGGTGTGCAGCC	0.647													4	4	---	---	---	---	PASS
VARS	7407	broad.mit.edu	37	6	31760836	31760836	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31760836G>A	uc003nxe.2	-	3	872	c.449C>T	c.(448-450)ACC>ATC	p.T150I	VARS_uc011doi.1_Intron	NM_006295	NP_006286	P26640	SYVC_HUMAN	valyl-tRNA synthetase	150	GST C-terminal.				translational elongation|valyl-tRNA aminoacylation	cytosol	ATP binding|protein binding|valine-tRNA ligase activity			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3					L-Valine(DB00161)	GGCCAAGTAGGTGTGCAGCCG	0.652													4	4	---	---	---	---	PASS
HSPA1L	3305	broad.mit.edu	37	6	31779345	31779345	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31779345G>A	uc003nxh.2	-	2	588	c.405C>T	c.(403-405)GCC>GCT	p.A135A	HSPA1L_uc010jte.2_Silent_p.A135A	NM_005527	NP_005518	P34931	HS71L_HUMAN	heat shock 70kDa protein 1-like	135					response to unfolded protein		ATP binding			ovary(3)|pleura(1)|kidney(1)|skin(1)	6						GGCCCAAAAAGGCCTCAGCAG	0.483													23	24	---	---	---	---	PASS
EHMT2	10919	broad.mit.edu	37	6	31857128	31857128	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:31857128G>A	uc003nxz.1	-						EHMT2_uc003nxy.1_Intron|EHMT2_uc011don.1_Intron|EHMT2_uc003nya.1_Intron	NM_006709	NP_006700	Q96KQ7	EHMT2_HUMAN	euchromatic histone-lysine N-methyltransferase 2						DNA methylation|peptidyl-lysine dimethylation	chromosome|nucleus	histone methyltransferase activity (H3-K27 specific)|histone methyltransferase activity (H3-K9 specific)|p53 binding|zinc ion binding			ovary(1)	1						CTCTGGGAAGGGGGAGGAGGA	0.627													12	18	---	---	---	---	PASS
TNXB	7148	broad.mit.edu	37	6	32026084	32026084	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:32026084C>T	uc003nzl.2	-	22	7778	c.7576G>A	c.(7576-7578)GGG>AGG	p.G2526R		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	2586	Fibronectin type-III 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						GTCAGCTCCCCCAGGAGAGGC	0.627													11	18	---	---	---	---	PASS
TNXB	7148	broad.mit.edu	37	6	32029219	32029219	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:32029219G>A	uc003nzl.2	-	21	7649	c.7447C>T	c.(7447-7449)CAC>TAC	p.H2483Y		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	2543	Fibronectin type-III 17.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						CGCCCCTCGTGGAGGCCATAC	0.672													19	37	---	---	---	---	PASS
TNXB	7148	broad.mit.edu	37	6	32030096	32030096	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:32030096G>T	uc003nzl.2	-	20	7208	c.7006C>A	c.(7006-7008)CAG>AAG	p.Q2336K		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	2398	Fibronectin type-III 16.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						TTCTTGTACTGGACCAGGAAG	0.602													17	36	---	---	---	---	PASS
TNXB	7148	broad.mit.edu	37	6	32038048	32038048	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:32038048C>T	uc003nzl.2	-	14	5336	c.5134G>A	c.(5134-5136)GAC>AAC	p.D1712N		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	1794	Fibronectin type-III 10.				actin cytoskeleton organization|cell adhesion|collagen metabolic process|elastic fiber assembly|signal transduction	extracellular space|intracellular|proteinaceous extracellular matrix	heparin binding|integrin binding				0						TGGGGCCCGTCTTTGTCCTTG	0.622													14	10	---	---	---	---	PASS
TNXB	7148	broad.mit.edu	37	6	32063503	32063503	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:32063503G>A	uc003nzl.2	-	3	2329	c.2127C>T	c.(2125-2127)TTC>TTT	p.F709F		NM_019105	NP_061978	P22105	TENX_HUMAN	tenascin XB isoform 1 precursor	709	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						CAGGGCCTCGGAAGCCCTCTA	0.667													10	17	---	---	---	---	PASS
AGPAT1	10554	broad.mit.edu	37	6	32138852	32138852	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:32138852G>A	uc003oae.2	-						PPT2_uc003nzy.1_RNA|AGPAT1_uc011dpj.1_Intron|AGPAT1_uc011dpk.1_Intron|AGPAT1_uc003oaf.2_Intron|AGPAT1_uc003oag.2_Intron|AGPAT1_uc003oah.2_Intron|AGPAT1_uc003oai.1_Intron|AGPAT1_uc011dpl.1_Intron	NM_006411	NP_006402	Q99943	PLCA_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 1						energy reserve metabolic process|phosphatidic acid biosynthetic process|positive regulation of cellular metabolic process|positive regulation of cytokine production|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane	1-acylglycerol-3-phosphate O-acyltransferase activity			central_nervous_system(1)	1						AAGATCCTGTGGGGTCATGGC	0.572													20	25	---	---	---	---	PASS
RNF5	6048	broad.mit.edu	37	6	32147309	32147309	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:32147309C>T	uc003oaj.3	+						AGPAT1_uc003oaf.2_5'Flank|AGPAT1_uc003oag.2_5'Flank|AGPAT1_uc003oah.2_5'Flank	NM_006913	NP_008844	Q99942	RNF5_HUMAN	ring finger protein 5						ER-associated misfolded protein catabolic process|protein K48-linked ubiquitination|protein K63-linked ubiquitination	endoplasmic reticulum membrane|integral to membrane|mitochondrial membrane	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0						TTTTTTCTCCCCCATCCAGTT	0.478													50	113	---	---	---	---	PASS
BTNL2	56244	broad.mit.edu	37	6	32372866	32372866	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:32372866C>T	uc003obg.1	-	2	277	c.277G>A	c.(277-279)GGC>AGC	p.G93S	BTNL2_uc010jty.1_Intron|BTNL2_uc010jtz.1_Intron|BTNL2_uc010jua.1_Intron	NM_019602	NP_062548	Q9UIR0	BTNL2_HUMAN	butyrophilin-like 2	93	Ig-like V-type 1.|Extracellular (Potential).					integral to membrane				central_nervous_system(1)	1						TCTACCCAGCCTCTGTACTCC	0.532													36	78	---	---	---	---	PASS
COL11A2	1302	broad.mit.edu	37	6	33137858	33137858	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:33137858C>T	uc003ocx.1	-	49	3830	c.3602G>A	c.(3601-3603)GGA>GAA	p.G1201E	COL11A2_uc010jul.1_Intron|COL11A2_uc003ocy.1_Missense_Mutation_p.G1115E|COL11A2_uc003ocz.1_Missense_Mutation_p.G1094E	NM_080680	NP_542411	P13942	COBA2_HUMAN	collagen, type XI, alpha 2 isoform 1	1201	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						CCCAACACCTCCTGGGGGACC	0.562													21	39	---	---	---	---	PASS
VPS52	6293	broad.mit.edu	37	6	33232566	33232566	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:33232566G>A	uc003odm.1	-	13	1603	c.1393C>T	c.(1393-1395)CTG>TTG	p.L465L	VPS52_uc003odn.1_Silent_p.L276L	NM_022553	NP_072047	Q8N1B4	VPS52_HUMAN	vacuolar protein sorting 52	465					protein transport	endosome membrane|Golgi apparatus				ovary(4)|skin(1)	5						GACCTGTCCAGGGCAGGAACA	0.498													41	94	---	---	---	---	PASS
ZBTB9	221504	broad.mit.edu	37	6	33423652	33423652	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:33423652C>T	uc003oeq.2	+	2	1043	c.775C>T	c.(775-777)CCC>TCC	p.P259S		NM_152735	NP_689948	Q96C00	ZBTB9_HUMAN	zinc finger and BTB domain containing 9	259	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GACTGCTACTCCCCGAAAGCT	0.587													19	39	---	---	---	---	PASS
PACSIN1	29993	broad.mit.edu	37	6	34499404	34499404	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:34499404C>T	uc003ojo.2	+	9	1271	c.1065C>T	c.(1063-1065)CCC>CCT	p.P355P	PACSIN1_uc003ojp.2_Silent_p.P355P	NM_020804	NP_065855	Q9BY11	PACN1_HUMAN	protein kinase C and casein kinase substrate in	355					endocytosis		protein kinase activity				0						GAGGCCAGCCCTACGCCACCG	0.627													37	48	---	---	---	---	PASS
TEAD3	7005	broad.mit.edu	37	6	35446354	35446354	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:35446354G>A	uc003oku.3	-						TEAD3_uc003okt.2_Intron|TEAD3_uc010jvx.2_Intron	NM_003214	NP_003205	Q99594	TEAD3_HUMAN	TEA domain family member 3						female pregnancy|hippo signaling cascade		DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						TGGTCCTGGGGAGAGGAGGCT	0.607													3	8	---	---	---	---	PASS
STK38	11329	broad.mit.edu	37	6	36483159	36483159	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:36483159T>A	uc003omg.2	-	6	1213	c.625A>T	c.(625-627)ATC>TTC	p.I209F	STK38_uc003omh.2_Missense_Mutation_p.I209F|STK38_uc003omi.2_Missense_Mutation_p.I209F	NM_007271	NP_009202	Q15208	STK38_HUMAN	serine/threonine kinase 38	209	Protein kinase.				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						TCTCTGTGGATGAATCCAAGT	0.433													18	50	---	---	---	---	PASS
PIM1	5292	broad.mit.edu	37	6	37138791	37138791	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:37138791C>T	uc003onk.2	+	3	654	c.224C>T	c.(223-225)TCC>TTC	p.S75F	PIM1_uc011dtw.1_5'Flank	NM_002648	NP_002639	P11309	PIM1_HUMAN	non-specific serine/threonine protein kinase	166	Protein kinase.				cell cycle|cell proliferation|multicellular organismal development|negative regulation of apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|protein autophosphorylation	cytoplasm|nucleus|plasma membrane	ATP binding|manganese ion binding|protein binding|protein binding|protein serine/threonine kinase activity|transcription factor binding			large_intestine(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(102;0.241)		Adenosine monophosphate(DB00131)	GACCGGATTTCCGACTGGGGA	0.642			T	BCL6	NHL								14	32	---	---	---	---	PASS
PIM1	5292	broad.mit.edu	37	6	37140804	37140804	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:37140804C>T	uc003onk.2	+	5	1070	c.640C>T	c.(640-642)CGC>TGC	p.R214C	PIM1_uc011dtw.1_Silent_p.S82S	NM_002648	NP_002639	P11309	PIM1_HUMAN	non-specific serine/threonine protein kinase	305	Protein kinase.				cell cycle|cell proliferation|multicellular organismal development|negative regulation of apoptosis|negative regulation of sequence-specific DNA binding transcription factor activity|positive regulation of cyclin-dependent protein kinase activity involved in G1/S|protein autophosphorylation	cytoplasm|nucleus|plasma membrane	ATP binding|manganese ion binding|protein binding|protein binding|protein serine/threonine kinase activity|transcription factor binding			large_intestine(1)|central_nervous_system(1)	2			OV - Ovarian serous cystadenocarcinoma(102;0.241)		Adenosine monophosphate(DB00131)	AGAGTGGATCCGCTACCATCG	0.517			T	BCL6	NHL								26	36	---	---	---	---	PASS
DNAH8	1769	broad.mit.edu	37	6	38690922	38690922	+	5'UTR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:38690922C>T	uc003ooe.1	+	1					DNAH8_uc003ood.1_Missense_Mutation_p.R113C	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						CTCCAGATACCGCCGGAGTAT	0.488													30	43	---	---	---	---	PASS
DNAH8	1769	broad.mit.edu	37	6	38790619	38790619	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:38790619T>A	uc003ooe.1	+	25	3478	c.2878T>A	c.(2878-2880)TTT>ATT	p.F960I		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						TTCAGGATCTTTTGAAGAAGC	0.338													11	12	---	---	---	---	PASS
DNAH8	1769	broad.mit.edu	37	6	38790796	38790796	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:38790796G>A	uc003ooe.1	+	25	3655	c.3055G>A	c.(3055-3057)GAT>AAT	p.D1019N		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						AGAGGACCGCGATGTGAAAGT	0.458													11	45	---	---	---	---	PASS
DNAH8	1769	broad.mit.edu	37	6	38825328	38825328	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:38825328A>G	uc003ooe.1	+	40	5717	c.5117A>G	c.(5116-5118)CAC>CGC	p.H1706R		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						TTGTGGACACACGATTCAGAA	0.343													19	39	---	---	---	---	PASS
KCNK16	83795	broad.mit.edu	37	6	39284636	39284636	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:39284636C>T	uc003ooq.2	-	4	597	c.583G>A	c.(583-585)GAG>AAG	p.E195K	KCNK17_uc003ooo.2_5'Flank|KCNK17_uc003oop.2_5'Flank|KCNK16_uc003oor.3_Missense_Mutation_p.E195K|KCNK16_uc010jwy.2_Missense_Mutation_p.E195K|KCNK16_uc011dtz.1_Missense_Mutation_p.E195K	NM_032115	NP_115491	Q96T55	KCNKG_HUMAN	potassium channel, subfamily K, member 16	195						integral to membrane	potassium channel activity|voltage-gated ion channel activity			ovary(2)|skin(1)	3						CTCCAGCCCTCCACATGGCTG	0.542													52	115	---	---	---	---	PASS
LRFN2	57497	broad.mit.edu	37	6	40399601	40399601	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:40399601G>A	uc003oph.1	-	2	1717	c.1252C>T	c.(1252-1254)CCC>TCC	p.P418S		NM_020737	NP_065788	Q9ULH4	LRFN2_HUMAN	leucine rich repeat and fibronectin type III	418	Fibronectin type-III.|Extracellular (Potential).					cell junction|integral to membrane|postsynaptic membrane				ovary(2)|skin(1)	3	Ovarian(28;0.0418)|Colorectal(47;0.196)					GGGCTTTTGGGAGGCTCTCCG	0.652													9	21	---	---	---	---	PASS
MRPS10	55173	broad.mit.edu	37	6	42185598	42185598	+	5'UTR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:42185598C>T	uc003osa.3	-	1					MRPS10_uc011dup.1_5'UTR	NM_018141	NP_060611	P82664	RT10_HUMAN	mitochondrial ribosomal protein S10						translation	actin cytoskeleton|mitochondrion|ribosome	structural constituent of ribosome				0	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)|Epithelial(12;0.00528)			CTTGCCGGTCCCGACCTCTCA	0.607													5	5	---	---	---	---	PASS
UBR2	23304	broad.mit.edu	37	6	42603165	42603165	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:42603165C>T	uc011dur.1	+	14	1555	c.1555C>T	c.(1555-1557)CCA>TCA	p.P519S	UBR2_uc011dus.1_Missense_Mutation_p.P164S|UBR2_uc010jxv.1_Missense_Mutation_p.P23S|UBR2_uc003osh.2_RNA	NM_015255	NP_056070	Q8IWV8	UBR2_HUMAN	ubiquitin protein ligase E3 component n-recognin	519					cellular response to leucine|chromatin silencing|histone H2A ubiquitination|negative regulation of TOR signaling cascade	nucleus|plasma membrane	leucine binding|zinc ion binding			ovary(3)|pancreas(1)	4	Colorectal(47;0.196)		Colorectal(64;0.00062)|COAD - Colon adenocarcinoma(64;0.00152)|all cancers(41;0.004)|KIRC - Kidney renal clear cell carcinoma(15;0.02)|Kidney(15;0.0388)|OV - Ovarian serous cystadenocarcinoma(102;0.196)			GGGAATGGATCCAATTACACG	0.318													17	29	---	---	---	---	PASS
PTK7	5754	broad.mit.edu	37	6	43099815	43099815	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:43099815C>T	uc003oub.1	+	6	1072	c.874C>T	c.(874-876)CGG>TGG	p.R292W	PTK7_uc003ouc.1_Missense_Mutation_p.R292W|PTK7_uc003oud.1_Missense_Mutation_p.R292W|PTK7_uc003oue.1_Missense_Mutation_p.R292W|PTK7_uc003ouf.1_RNA|PTK7_uc003oug.1_RNA|PTK7_uc011dve.1_Missense_Mutation_p.R300W|PTK7_uc010jyj.1_5'Flank|PTK7_uc003oua.2_Missense_Mutation_p.R292W	NM_002821	NP_002812	Q13308	PTK7_HUMAN	PTK7 protein tyrosine kinase 7 isoform a	292	Ig-like C2-type 3.|Extracellular (Potential).				actin cytoskeleton reorganization|canonical Wnt receptor signaling pathway|cell adhesion|cell migration	cell-cell junction|integral to plasma membrane	ATP binding|transmembrane receptor protein tyrosine kinase activity			ovary(2)|large_intestine(1)	3			Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|all cancers(41;0.00784)|OV - Ovarian serous cystadenocarcinoma(102;0.0423)			GACCCAGGTCCGGCCACGCAA	0.617													10	22	---	---	---	---	PASS
CUL9	23113	broad.mit.edu	37	6	43172102	43172102	+	Silent	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:43172102G>T	uc003ouk.2	+	21	4239	c.4164G>T	c.(4162-4164)GCG>GCT	p.A1388A	CUL9_uc003oul.2_Silent_p.A1388A|CUL9_uc010jyk.2_Silent_p.A540A	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein	1388					ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						TTTCAGATGCGGAAGGCGTGA	0.537													5	77	---	---	---	---	PASS
CUL9	23113	broad.mit.edu	37	6	43172989	43172989	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:43172989C>T	uc003ouk.2	+						CUL9_uc003oul.2_Intron|CUL9_uc010jyk.2_Intron	NM_015089	NP_055904	Q8IWT3	CUL9_HUMAN	p53-associated parkin-like cytoplasmic protein						ubiquitin-dependent protein catabolic process	cullin-RING ubiquitin ligase complex|cytoplasm	ATP binding|ubiquitin protein ligase binding|zinc ion binding			ovary(5)|lung(3)|skin(2)|breast(1)|central_nervous_system(1)	12						ATGCCCTTTCCCCTGCCCCCA	0.552													51	101	---	---	---	---	PASS
TTBK1	84630	broad.mit.edu	37	6	43250759	43250759	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:43250759G>A	uc003ouq.1	+	14	2560	c.2281G>A	c.(2281-2283)GAA>AAA	p.E761K		NM_032538	NP_115927	Q5TCY1	TTBK1_HUMAN	tau tubulin kinase 1	761	Glu-rich.|Potential.					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)			agaggaggaggaagaagagga	0.259													6	14	---	---	---	---	PASS
ZNF318	24149	broad.mit.edu	37	6	43316338	43316338	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:43316338C>T	uc003oux.2	-	6	2874	c.2796G>A	c.(2794-2796)AGG>AGA	p.R932R	ZNF318_uc003ouw.2_RNA	NM_014345	NP_055160	Q5VUA4	ZN318_HUMAN	zinc finger protein 318	932	Potential.				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)			CATCCTTCTCCCTTCGTTTCT	0.443													18	28	---	---	---	---	PASS
ZNF318	24149	broad.mit.edu	37	6	43316339	43316339	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:43316339C>T	uc003oux.2	-	6	2873	c.2795G>A	c.(2794-2796)AGG>AAG	p.R932K	ZNF318_uc003ouw.2_RNA	NM_014345	NP_055160	Q5VUA4	ZN318_HUMAN	zinc finger protein 318	932	Potential.				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)			ATCCTTCTCCCTTCGTTTCTT	0.438													18	28	---	---	---	---	PASS
GTPBP2	54676	broad.mit.edu	37	6	43592737	43592737	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:43592737G>A	uc003ovs.2	-	6	805	c.768C>T	c.(766-768)ATC>ATT	p.I256I	GTPBP2_uc010jyv.2_Silent_p.I168I|GTPBP2_uc003ovt.1_Silent_p.I256I	NM_019096	NP_061969	Q9BX10	GTPB2_HUMAN	GTP binding protein 2	256							GTP binding|GTPase activity			liver(1)|skin(1)	2	all_cancers(18;9.36e-06)|Lung NSC(15;0.00161)|all_lung(25;0.004)		all cancers(41;0.000501)|Colorectal(64;0.00245)|COAD - Colon adenocarcinoma(64;0.00536)|STAD - Stomach adenocarcinoma(11;0.0826)|OV - Ovarian serous cystadenocarcinoma(102;0.167)			CGATGAAGGTGATCATCTTGG	0.592													18	40	---	---	---	---	PASS
CAPN11	11131	broad.mit.edu	37	6	44150729	44150729	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:44150729G>A	uc003owt.1	+	20	2028	c.1990G>A	c.(1990-1992)GAG>AAG	p.E664K	CAPN11_uc011dvn.1_Intron	NM_007058	NP_008989	Q9UMQ6	CAN11_HUMAN	calpain 11	664	Domain IV.|2 (Potential).|EF-hand 2.				proteolysis	acrosomal vesicle	calcium ion binding|calcium-dependent cysteine-type endopeptidase activity			ovary(1)|breast(1)	2	all_cancers(18;3.19e-06)|Lung NSC(15;0.00108)|all_lung(25;0.00278)|Hepatocellular(11;0.00908)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)			GAACTCCTATGAGATGCGCCT	0.537													6	18	---	---	---	---	PASS
AARS2	57505	broad.mit.edu	37	6	44272836	44272836	+	Missense_Mutation	SNP	C	T	T	rs146512155		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:44272836C>T	uc010jza.1	-	11	1537	c.1534G>A	c.(1534-1536)GAC>AAC	p.D512N	SPATS1_uc003oxg.2_Intron|TMEM151B_uc003oxf.2_Intron	NM_020745	NP_065796	Q5JTZ9	SYAM_HUMAN	alanyl-tRNA synthetase 2, mitochondrial	512					alanyl-tRNA aminoacylation	mitochondrion	alanine-tRNA ligase activity|ATP binding|metal ion binding|tRNA binding			ovary(1)	1	Hepatocellular(11;0.00908)|all_lung(25;0.0101)|Ovarian(13;0.0273)		Colorectal(64;0.00337)|COAD - Colon adenocarcinoma(64;0.00536)		L-Alanine(DB00160)	TTGGGGCTGTCGTCAGTTGGG	0.607											OREG0017473	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	38	61	---	---	---	---	PASS
RUNX2	860	broad.mit.edu	37	6	45515016	45515016	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:45515016G>A	uc011dvx.1	+	9	1750	c.1540G>A	c.(1540-1542)GAT>AAT	p.D514N	RUNX2_uc011dvy.1_Missense_Mutation_p.D492N|RUNX2_uc003oxt.2_Missense_Mutation_p.D500N	NM_001024630	NP_001019801	Q13950	RUNX2_HUMAN	runt-related transcription factor 2 isoform a	514	Pro/Ser/Thr-rich.				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						TGGCAGAATGGATGAATCTGT	0.443													21	36	---	---	---	---	PASS
ENPP4	22875	broad.mit.edu	37	6	46107761	46107761	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:46107761C>T	uc003oxy.2	+	2	700	c.441C>T	c.(439-441)ATC>ATT	p.I147I		NM_014936	NP_055751	Q9Y6X5	ENPP4_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	147	Extracellular (Potential).					integral to membrane	hydrolase activity			ovary(3)|skin(1)	4						ACGATACCATCTCTTCCTATT	0.413													30	81	---	---	---	---	PASS
ENPP4	22875	broad.mit.edu	37	6	46107950	46107950	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:46107950A>G	uc003oxy.2	+	2	889	c.630A>G	c.(628-630)ATA>ATG	p.I210M		NM_014936	NP_055751	Q9Y6X5	ENPP4_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	210	Extracellular (Potential).					integral to membrane	hydrolase activity			ovary(3)|skin(1)	4						TGAAAAAAATAGATGATCTTA	0.398													28	72	---	---	---	---	PASS
ENPP4	22875	broad.mit.edu	37	6	46111176	46111176	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:46111176G>A	uc003oxy.2	+	4	1420	c.1161G>A	c.(1159-1161)GGG>GGA	p.G387G		NM_014936	NP_055751	Q9Y6X5	ENPP4_HUMAN	ectonucleotide pyrophosphatase/phosphodiesterase	387	Extracellular (Potential).					integral to membrane	hydrolase activity			ovary(3)|skin(1)	4						CCAATAATGGGACCTTTGGTC	0.423													30	55	---	---	---	---	PASS
SLC25A27	9481	broad.mit.edu	37	6	46632505	46632505	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:46632505C>T	uc003oyh.2	+						SLC25A27_uc011dwb.1_Intron|SLC25A27_uc003oyg.2_Intron|SLC25A27_uc011dwc.1_Intron|SLC25A27_uc003oyi.2_Intron	NM_004277	NP_004268	O95847	UCP4_HUMAN	solute carrier family 25, member 27						generation of precursor metabolites and energy|transport	integral to membrane|mitochondrial inner membrane					0			Lung(136;0.192)			TTATTATTCTCCTTAGATTTC	0.373													15	18	---	---	---	---	PASS
GPR116	221395	broad.mit.edu	37	6	46826469	46826469	+	Silent	SNP	G	A	A	rs151037028		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:46826469G>A	uc003oyo.3	-	17	3460	c.3171C>T	c.(3169-3171)ATC>ATT	p.I1057I	GPR116_uc011dwj.1_Silent_p.I612I|GPR116_uc011dwk.1_Silent_p.I486I|GPR116_uc003oyp.3_Silent_p.I915I|GPR116_uc003oyq.3_Silent_p.I1057I|GPR116_uc010jzi.1_Silent_p.I729I	NM_001098518	NP_001091988	Q8IZF2	GP116_HUMAN	G-protein coupled receptor 116 precursor	1057	Helical; Name=2; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity	p.I1057I(1)		central_nervous_system(1)|skin(1)	2			Lung(136;0.192)			GGGAGGCAGCGATATTCACTA	0.537													16	27	---	---	---	---	PASS
GPR116	221395	broad.mit.edu	37	6	46826629	46826629	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:46826629G>A	uc003oyo.3	-	17	3300	c.3011C>T	c.(3010-3012)CCT>CTT	p.P1004L	GPR116_uc011dwj.1_Missense_Mutation_p.P559L|GPR116_uc011dwk.1_Missense_Mutation_p.P433L|GPR116_uc003oyp.3_Missense_Mutation_p.P862L|GPR116_uc003oyq.3_Missense_Mutation_p.P1004L|GPR116_uc010jzi.1_Missense_Mutation_p.P676L	NM_001098518	NP_001091988	Q8IZF2	GP116_HUMAN	G-protein coupled receptor 116 precursor	1004	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)			GAGAGAACTAGGATCTGGGGA	0.488													8	32	---	---	---	---	PASS
GPR116	221395	broad.mit.edu	37	6	46826655	46826655	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:46826655G>A	uc003oyo.3	-	17	3274	c.2985C>T	c.(2983-2985)ATC>ATT	p.I995I	GPR116_uc011dwj.1_Silent_p.I550I|GPR116_uc011dwk.1_Silent_p.I424I|GPR116_uc003oyp.3_Silent_p.I853I|GPR116_uc003oyq.3_Silent_p.I995I|GPR116_uc010jzi.1_Silent_p.I667I	NM_001098518	NP_001091988	Q8IZF2	GP116_HUMAN	G-protein coupled receptor 116 precursor	995	GPS.|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)			GGGACATGAGGATGGAGAATG	0.502													9	28	---	---	---	---	PASS
GPR116	221395	broad.mit.edu	37	6	46839756	46839756	+	Intron	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:46839756A>T	uc003oyo.3	-						GPR116_uc011dwj.1_5'Flank|GPR116_uc011dwk.1_5'Flank|GPR116_uc003oyp.3_Intron|GPR116_uc003oyq.3_Intron|GPR116_uc010jzi.1_Intron|GPR116_uc003oyr.2_Intron	NM_001098518	NP_001091988	Q8IZF2	GP116_HUMAN	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)			GGTTCCTATAATGAGAAGCAA	0.418													14	23	---	---	---	---	PASS
TNFRSF21	27242	broad.mit.edu	37	6	47253992	47253992	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:47253992G>A	uc003oyv.2	-	2	869	c.436C>T	c.(436-438)CCC>TCC	p.P146S		NM_014452	NP_055267	O75509	TNR21_HUMAN	tumor necrosis factor receptor superfamily,	146	Extracellular (Potential).|TNFR-Cys 3.				cellular lipid metabolic process	cytoplasm|integral to membrane	protein binding|receptor activity				0			Lung(136;0.189)			ACCGTATGGGGGGCACAGGTA	0.547													47	94	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	6	47846030	47846030	+	IGR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:47846030C>T								OPN5 (51916 upstream) : C6orf138 (10 downstream)																							ATCCACTGGTCTATACCCCTC	0.458													25	62	---	---	---	---	PASS
C6orf138	442213	broad.mit.edu	37	6	47847666	47847666	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:47847666C>T	uc011dwm.1	-	3	948	c.863G>A	c.(862-864)GGA>GAA	p.G288E	C6orf138_uc011dwn.1_Missense_Mutation_p.G52E	NM_001013732	NP_001013754	Q6ZW05	CF138_HUMAN	hypothetical protein LOC442213	305	Helical; (Potential).|SSD.					integral to membrane	hedgehog receptor activity			central_nervous_system(1)	1						TCCTTTAGTTCCATGACCTAA	0.363													6	10	---	---	---	---	PASS
RHAG	6005	broad.mit.edu	37	6	49586917	49586917	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:49586917G>T	uc003ozk.3	-	2	378	c.316C>A	c.(316-318)CAG>AAG	p.Q106K	RHAG_uc010jzl.2_Missense_Mutation_p.Q106K|RHAG_uc010jzm.2_Missense_Mutation_p.Q106K	NM_000324	NP_000315	Q02094	RHAG_HUMAN	Rh-associated glycoprotein	106	Extracellular (Potential).				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)					TTAAATTTCTGTCCCTGGCTT	0.318													21	35	---	---	---	---	PASS
PKHD1	5314	broad.mit.edu	37	6	51524180	51524180	+	Missense_Mutation	SNP	C	T	T	rs148300854		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:51524180C>T	uc003pah.1	-	61	11020	c.10744G>A	c.(10744-10746)GAA>AAA	p.E3582K		NM_138694	NP_619639	P08F94	PKHD1_HUMAN	fibrocystin isoform 1	3582	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)					GTTAGTCTTTCGAGTATTACT	0.438													21	35	---	---	---	---	PASS
IL17F	112744	broad.mit.edu	37	6	52101843	52101843	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:52101843C>T	uc003pam.1	-	3	449	c.378G>A	c.(376-378)GAG>GAA	p.E126E	IL17F_uc003pal.1_Silent_p.E72E	NM_052872	NP_443104	Q96PD4	IL17F_HUMAN	interleukin 17F precursor	126					cartilage development|inflammatory response|lymphotoxin A biosynthetic process|negative regulation of angiogenesis|proteoglycan metabolic process|regulation of granulocyte macrophage colony-stimulating factor biosynthetic process|regulation of interleukin-2 biosynthetic process|regulation of interleukin-6 biosynthetic process|regulation of interleukin-8 biosynthetic process|regulation of transforming growth factor beta receptor signaling pathway	extracellular space	cytokine activity|cytokine binding|protein homodimerization activity			ovary(1)	1	Lung NSC(77;0.116)					CGACCAGGGTCTCTTGCTGGA	0.552													15	36	---	---	---	---	PASS
TRAM2	9697	broad.mit.edu	37	6	52370924	52370924	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:52370924G>A	uc003paq.2	-	8	786	c.637C>T	c.(637-639)CTG>TTG	p.L213L	EFHC1_uc011dwv.1_Intron|TRAM2_uc003par.1_RNA	NM_012288	NP_036420	Q15035	TRAM2_HUMAN	translocation-associated membrane protein 2	213	TLC.|Helical; (Potential).				collagen biosynthetic process|protein transport|transmembrane transport	integral to membrane	protein binding				0	Lung NSC(77;0.109)					ATCAGGCCCAGGCGGCTCAGG	0.537													21	30	---	---	---	---	PASS
GFRAL	389400	broad.mit.edu	37	6	55214924	55214924	+	Silent	SNP	A	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:55214924A>C	uc003pcm.1	+	4	437	c.351A>C	c.(349-351)CTA>CTC	p.L117L		NM_207410	NP_997293	Q6UXV0	GFRAL_HUMAN	GDNF family receptor alpha like precursor	117	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)			AATGGAATCTAACTACACGTT	0.299													8	21	---	---	---	---	PASS
GFRAL	389400	broad.mit.edu	37	6	55223928	55223928	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:55223928C>T	uc003pcm.1	+	6	1030	c.944C>T	c.(943-945)TCA>TTA	p.S315L		NM_207410	NP_997293	Q6UXV0	GFRAL_HUMAN	GDNF family receptor alpha like precursor	315	Extracellular (Potential).					integral to membrane	receptor activity			ovary(1)|breast(1)	2	Lung NSC(77;0.0875)|Renal(3;0.122)		LUSC - Lung squamous cell carcinoma(124;0.23)			CATAGAAAATCATGTTTCAGT	0.284													19	27	---	---	---	---	PASS
HMGCLL1	54511	broad.mit.edu	37	6	55406863	55406863	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:55406863C>T	uc003pcn.2	-	3	433	c.274G>A	c.(274-276)GAA>AAA	p.E92K	HMGCLL1_uc003pco.2_Missense_Mutation_p.E62K|HMGCLL1_uc010jzx.2_5'UTR|HMGCLL1_uc011dxc.1_Missense_Mutation_p.E62K|HMGCLL1_uc011dxd.1_Missense_Mutation_p.E62K|HMGCLL1_uc011dxe.1_Missense_Mutation_p.E62K|HMGCLL1_uc003pcp.2_Missense_Mutation_p.E62K	NM_019036	NP_061909	Q8TB92	HMGC2_HUMAN	3-hydroxymethyl-3-methylglutaryl-Coenzyme A	92							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)			ACTACCTTTTCATTCTGCAAT	0.313													5	15	---	---	---	---	PASS
DST	667	broad.mit.edu	37	6	56368827	56368827	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:56368827C>T	uc003pdf.2	-	72	13205	c.13177G>A	c.(13177-13179)GAA>AAA	p.E4393K	DST_uc003pcz.3_Missense_Mutation_p.E4215K|DST_uc011dxj.1_Missense_Mutation_p.E4244K|DST_uc011dxk.1_Missense_Mutation_p.E4255K|DST_uc003pcy.3_Missense_Mutation_p.E3889K	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	dystonin isoform 2	6301	Spectrin 14.				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)			TTGACAGTTTCGAGATCTGTT	0.418													16	37	---	---	---	---	PASS
DST	667	broad.mit.edu	37	6	56472155	56472155	+	Intron	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:56472155C>A	uc003pdf.2	-						DST_uc003pcz.3_Intron|DST_uc011dxj.1_Intron|DST_uc011dxk.1_Intron|DST_uc003pcy.3_Intron|DST_uc003pdb.2_Missense_Mutation_p.R1887M	NM_001144769	NP_001138241	Q03001	DYST_HUMAN	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)			AGGTGAATCCCTGTTTGTATT	0.348													4	46	---	---	---	---	PASS
KIAA1586	57691	broad.mit.edu	37	6	56917868	56917868	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:56917868C>T	uc003pdj.2	+	4	741	c.571C>T	c.(571-573)CCT>TCT	p.P191S	KIAA1586_uc011dxm.1_Missense_Mutation_p.P164S	NM_020931	NP_065982	Q9HCI6	K1586_HUMAN	hypothetical protein LOC57691	191							nucleic acid binding				0	Lung NSC(77;0.0969)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			TTTAGTAACCCCTAATGGCAG	0.368													15	44	---	---	---	---	PASS
KIAA1586	57691	broad.mit.edu	37	6	56917869	56917869	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:56917869C>T	uc003pdj.2	+	4	742	c.572C>T	c.(571-573)CCT>CTT	p.P191L	KIAA1586_uc011dxm.1_Missense_Mutation_p.P164L	NM_020931	NP_065982	Q9HCI6	K1586_HUMAN	hypothetical protein LOC57691	191							nucleic acid binding				0	Lung NSC(77;0.0969)		LUSC - Lung squamous cell carcinoma(124;0.0785)|Lung(124;0.13)			TTAGTAACCCCTAATGGCAGT	0.373													15	46	---	---	---	---	PASS
PRIM2	5558	broad.mit.edu	37	6	57512508	57512508	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57512508C>T	uc003pdx.2	+	15	1423	c.1336C>T	c.(1336-1338)CAG>TAG	p.Q446*		NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2	446					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)		TCATCCTAATCATTTCTTTTG	0.353													23	115	---	---	---	---	PASS
PRIM2	5558	broad.mit.edu	37	6	57512648	57512648	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57512648C>T	uc003pdx.2	+	15	1563	c.1476C>T	c.(1474-1476)TCC>TCT	p.S492S		NM_000947	NP_000938	P49643	PRI2_HUMAN	DNA primase polypeptide 2	492					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)		CTTTAAATTCCTCTCTGGAAA	0.398													54	432	---	---	---	---	PASS
KHDRBS2	202559	broad.mit.edu	37	6	62442587	62442587	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:62442587C>T	uc003peg.2	-	7	1140	c.893G>A	c.(892-894)AGT>AAT	p.S298N		NM_152688	NP_689901	Q5VWX1	KHDR2_HUMAN	KH domain-containing, RNA-binding, signal	298					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)		AATGCCTTACCTTTGTGTTTG	0.373													28	47	---	---	---	---	PASS
KHDRBS2	202559	broad.mit.edu	37	6	62611264	62611264	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:62611264C>T	uc003peg.2	-	5	743	c.496G>A	c.(496-498)GAA>AAA	p.E166K		NM_152688	NP_689901	Q5VWX1	KHDR2_HUMAN	KH domain-containing, RNA-binding, signal	166					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)		TGACGAATTTCATCATTGTAG	0.398													15	47	---	---	---	---	PASS
LGSN	51557	broad.mit.edu	37	6	63990524	63990524	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:63990524G>A	uc003peh.2	-	4	966	c.932C>T	c.(931-933)TCA>TTA	p.S311L	LGSN_uc003pei.2_Intron	NM_016571	NP_057655	Q5TDP6	LGSN_HUMAN	lengsin, lens protein with glutamine synthetase	311					glutamine biosynthetic process		glutamate-ammonia ligase activity			skin(2)	2					L-Glutamic Acid(DB00142)	CAAAATCCCTGAATCACAAAA	0.418													22	39	---	---	---	---	PASS
PHF3	23469	broad.mit.edu	37	6	64394342	64394342	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:64394342G>A	uc003pep.1	+	3	745	c.719G>A	c.(718-720)TGT>TAT	p.C240Y	PHF3_uc010kaf.1_Missense_Mutation_p.C240Y|PHF3_uc003pem.2_Missense_Mutation_p.C193Y|PHF3_uc010kag.1_Missense_Mutation_p.C152Y|PHF3_uc010kah.1_Missense_Mutation_p.C54Y|PHF3_uc003pen.2_Missense_Mutation_p.C152Y|PHF3_uc011dxs.1_Intron|PHF3_uc003peo.2_Missense_Mutation_p.C240Y	NM_015153	NP_055968	Q92576	PHF3_HUMAN	PHD finger protein 3	240					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)			AAGCATAAGTGTAATAATCCG	0.348													28	57	---	---	---	---	PASS
COL19A1	1310	broad.mit.edu	37	6	70637811	70637811	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:70637811C>T	uc003pfc.1	+	5	394	c.277C>T	c.(277-279)CCC>TCC	p.P93S	COL19A1_uc010kam.1_5'UTR	NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	93	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						TAAGATATTTCCCAAAGGCCT	0.413													20	55	---	---	---	---	PASS
COL19A1	1310	broad.mit.edu	37	6	70639419	70639419	+	Missense_Mutation	SNP	C	T	T	rs112596596	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:70639419C>T	uc003pfc.1	+	6	610	c.493C>T	c.(493-495)CCT>TCT	p.P165S	COL19A1_uc010kam.1_Missense_Mutation_p.P61S	NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	165	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						AGAACTCCGTCCTTTGTTTGA	0.393													13	35	---	---	---	---	PASS
COL19A1	1310	broad.mit.edu	37	6	70639420	70639420	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:70639420C>T	uc003pfc.1	+	6	611	c.494C>T	c.(493-495)CCT>CTT	p.P165L	COL19A1_uc010kam.1_Missense_Mutation_p.P61L	NM_001858	NP_001849	Q14993	COJA1_HUMAN	alpha 1 type XIX collagen precursor	165	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						GAACTCCGTCCTTTGTTTGAT	0.393													13	35	---	---	---	---	PASS
COL9A1	1297	broad.mit.edu	37	6	70935639	70935639	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:70935639G>A	uc003pfg.3	-	37	2736	c.2577C>T	c.(2575-2577)CTC>CTT	p.L859L	COL9A1_uc003pfe.3_Silent_p.L408L|COL9A1_uc003pff.3_Silent_p.L616L	NM_001851	NP_001842	P20849	CO9A1_HUMAN	alpha 1 type IX collagen isoform 1 precursor	859	Triple-helical region (COL1).				axon guidance|cell adhesion|organ morphogenesis	collagen type IX	metal ion binding			ovary(4)	4						ACTTACCTGGGAGACCTATAG	0.423													17	41	---	---	---	---	PASS
SMAP1	60682	broad.mit.edu	37	6	71567878	71567878	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:71567878C>T	uc003pfr.2	+	10	1463	c.1215C>T	c.(1213-1215)CCC>CCT	p.P405P	SMAP1_uc003pfs.2_Silent_p.P378P|SMAP1_uc010kao.2_Silent_p.P378P|SMAP1_uc010kap.2_Silent_p.P395P	NM_001044305	NP_001037770	Q8IYB5	SMAP1_HUMAN	stromal membrane-associated GTPase-activating	405					regulation of ARF GTPase activity	plasma membrane	ARF GTPase activator activity|zinc ion binding				0						TGGGTGCACCCCAGAGTAAGT	0.522													13	25	---	---	---	---	PASS
RIMS1	22999	broad.mit.edu	37	6	72957740	72957740	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:72957740G>A	uc003pga.2	+	12	2228	c.2151G>A	c.(2149-2151)CAG>CAA	p.Q717Q	RIMS1_uc011dyb.1_Silent_p.Q343Q|RIMS1_uc003pgc.2_Silent_p.Q343Q|RIMS1_uc010kaq.2_Silent_p.Q191Q|RIMS1_uc011dyc.1_Silent_p.Q191Q|RIMS1_uc010kar.2_Silent_p.Q110Q|RIMS1_uc011dyd.1_Silent_p.Q176Q|RIMS1_uc003pgf.2_5'Flank|RIMS1_uc003pgg.2_5'Flank|RIMS1_uc003pgi.2_5'Flank|RIMS1_uc003pgh.2_5'Flank|RIMS1_uc003pgd.2_5'Flank|RIMS1_uc003pge.2_5'Flank|RIMS1_uc003pgb.3_Silent_p.Q343Q|RIMS1_uc010kas.1_Silent_p.Q176Q	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	717					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)				TTGAATCTCAGAAGATGGAAA	0.328													20	39	---	---	---	---	PASS
RIMS1	22999	broad.mit.edu	37	6	72968786	72968786	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:72968786G>A	uc003pga.2	+	18	3102	c.3025G>A	c.(3025-3027)GAT>AAT	p.D1009N	RIMS1_uc011dyb.1_Missense_Mutation_p.D634N|RIMS1_uc003pgc.2_Missense_Mutation_p.D635N|RIMS1_uc010kaq.2_Missense_Mutation_p.D482N|RIMS1_uc011dyc.1_Missense_Mutation_p.D483N|RIMS1_uc010kar.2_Missense_Mutation_p.D402N|RIMS1_uc011dyd.1_Missense_Mutation_p.D468N|RIMS1_uc003pgf.2_Missense_Mutation_p.D225N|RIMS1_uc003pgg.2_Missense_Mutation_p.D226N|RIMS1_uc003pgi.2_Missense_Mutation_p.D225N|RIMS1_uc003pgh.2_Missense_Mutation_p.D225N|RIMS1_uc003pgd.2_Missense_Mutation_p.D226N|RIMS1_uc003pge.2_Missense_Mutation_p.D226N|RIMS1_uc011dye.1_5'UTR|RIMS1_uc011dyf.1_5'Flank|RIMS1_uc003pgb.3_Missense_Mutation_p.D635N|RIMS1_uc010kas.1_Missense_Mutation_p.D468N	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	1009					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)				CAGAGATGTGGATAGTCAGTA	0.363													33	34	---	---	---	---	PASS
RIMS1	22999	broad.mit.edu	37	6	73108740	73108740	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:73108740C>T	uc003pga.2	+	33	4881	c.4804C>T	c.(4804-4806)CCT>TCT	p.P1602S	RIMS1_uc011dyb.1_Missense_Mutation_p.P999S|RIMS1_uc003pgc.2_Missense_Mutation_p.P1017S|RIMS1_uc010kaq.2_Missense_Mutation_p.P922S|RIMS1_uc011dyc.1_Missense_Mutation_p.P727S|RIMS1_uc010kar.2_Missense_Mutation_p.P670S|RIMS1_uc011dyd.1_Missense_Mutation_p.P736S|RIMS1_uc003pgf.2_Missense_Mutation_p.P602S|RIMS1_uc003pgg.2_Missense_Mutation_p.P498S|RIMS1_uc003pgi.2_Missense_Mutation_p.P418S|RIMS1_uc003pgh.2_Missense_Mutation_p.P469S|RIMS1_uc003pgd.2_Missense_Mutation_p.P668S|RIMS1_uc003pge.2_Missense_Mutation_p.P642S|RIMS1_uc011dye.1_Missense_Mutation_p.P408S|RIMS1_uc011dyf.1_Missense_Mutation_p.P226S|RIMS1_uc011dyg.1_Missense_Mutation_p.P129S	NM_014989	NP_055804	Q86UR5	RIMS1_HUMAN	regulating synaptic membrane exocytosis 1	1602	C2 2.				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)				AACCCTTGATCCTTTGTATCA	0.363													22	40	---	---	---	---	PASS
KCNQ5	56479	broad.mit.edu	37	6	73713679	73713679	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:73713679C>T	uc003pgk.2	+	2	794	c.447C>T	c.(445-447)ATC>ATT	p.I149I	KCNQ5_uc003pgj.3_Silent_p.I149I|KCNQ5_uc011dyh.1_Silent_p.I149I|KCNQ5_uc011dyi.1_Silent_p.I149I|KCNQ5_uc010kat.2_Silent_p.I149I|KCNQ5_uc011dyj.1_Silent_p.I149I|KCNQ5_uc011dyk.1_5'UTR	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	149					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)		TTTCTACCATCCCTGAGCACA	0.363													18	37	---	---	---	---	PASS
KCNQ5	56479	broad.mit.edu	37	6	73787531	73787531	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:73787531C>T	uc003pgk.2	+	5	1186	c.839C>T	c.(838-840)TCG>TTG	p.S280L	KCNQ5_uc003pgj.3_Missense_Mutation_p.S280L|KCNQ5_uc011dyh.1_Missense_Mutation_p.S280L|KCNQ5_uc011dyi.1_Missense_Mutation_p.S280L|KCNQ5_uc010kat.2_Missense_Mutation_p.S280L|KCNQ5_uc011dyj.1_Missense_Mutation_p.S280L|KCNQ5_uc011dyk.1_Missense_Mutation_p.S39L	NM_019842	NP_062816	Q9NR82	KCNQ5_HUMAN	potassium voltage-gated channel, KQT-like	280	Helical; Name=Segment S5; (Potential).				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)		CTTATTTTTTCGTCTTTCCTT	0.338													13	17	---	---	---	---	PASS
CD109	135228	broad.mit.edu	37	6	74477809	74477809	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:74477809G>A	uc003php.2	+	14	1954	c.1529G>A	c.(1528-1530)GGA>GAA	p.G510E	CD109_uc010kaz.2_Missense_Mutation_p.G510E|CD109_uc003phq.2_Missense_Mutation_p.G510E|CD109_uc010kba.2_Missense_Mutation_p.G433E	NM_133493	NP_598000	Q6YHK3	CD109_HUMAN	CD109 antigen isoform 1 precursor	510						anchored to membrane|extracellular space|plasma membrane	serine-type endopeptidase inhibitor activity			large_intestine(2)|ovary(2)	4						GTGGCTGTAGGAAAACAAAAT	0.358													15	35	---	---	---	---	PASS
FILIP1	27145	broad.mit.edu	37	6	76023417	76023417	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:76023417G>A	uc003pia.2	-	5	2504	c.2131C>T	c.(2131-2133)CGG>TGG	p.R711W	FILIP1_uc003phy.1_Missense_Mutation_p.R711W|FILIP1_uc003phz.2_Missense_Mutation_p.R612W|FILIP1_uc010kbe.2_Missense_Mutation_p.R714W|FILIP1_uc003pib.1_Missense_Mutation_p.R463W	NM_015687	NP_056502	Q7Z7B0	FLIP1_HUMAN	filamin A interacting protein 1	711	Potential.									skin(3)|ovary(1)	4						TCTTCCAACCGAAATCTGTGT	0.413													41	93	---	---	---	---	PASS
FILIP1	27145	broad.mit.edu	37	6	76023520	76023520	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:76023520G>A	uc003pia.2	-	5	2401	c.2028C>T	c.(2026-2028)TTC>TTT	p.F676F	FILIP1_uc003phy.1_Silent_p.F676F|FILIP1_uc003phz.2_Silent_p.F577F|FILIP1_uc010kbe.2_Silent_p.F679F|FILIP1_uc003pib.1_Silent_p.F428F	NM_015687	NP_056502	Q7Z7B0	FLIP1_HUMAN	filamin A interacting protein 1	676	Potential.									skin(3)|ovary(1)	4						GTTGAGAGAGGAAGTTAGCCT	0.433													43	115	---	---	---	---	PASS
MYO6	4646	broad.mit.edu	37	6	76589588	76589588	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:76589588C>T	uc003pih.1	+	21	2408	c.2129C>T	c.(2128-2130)TCA>TTA	p.S710L	MYO6_uc003pig.1_Missense_Mutation_p.S710L|MYO6_uc003pii.1_Missense_Mutation_p.S710L	NM_004999	NP_004990	Q9UM54	MYO6_HUMAN	myosin VI	710	Myosin head-like.				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)		TCACGAGCTTCATTTCATGAA	0.408													26	44	---	---	---	---	PASS
LCA5	167691	broad.mit.edu	37	6	80201433	80201433	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:80201433C>T	uc003pix.2	-	6	1405	c.970G>A	c.(970-972)GAT>AAT	p.D324N	LCA5_uc003piy.2_Missense_Mutation_p.D324N|LCA5_uc011dyq.1_RNA	NM_001122769	NP_001116241	Q86VQ0	LCA5_HUMAN	Leber congenital amaurosis 5	324					protein transport	cilium axoneme|microtubule basal body	protein binding				0		all_cancers(76;3.32e-05)|Acute lymphoblastic leukemia(125;1.1e-05)|all_hematologic(105;0.00117)|all_epithelial(107;0.0176)		BRCA - Breast invasive adenocarcinoma(397;0.0657)		TCTGCAAAATCACTCTGGCAT	0.299													22	73	---	---	---	---	PASS
SH3BGRL2	83699	broad.mit.edu	37	6	80383325	80383325	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:80383325C>T	uc003piz.1	+							NM_031469	NP_113657	Q9UJC5	SH3L2_HUMAN	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)		TGTCTTCTCTCTTTAGATAAA	0.353													21	37	---	---	---	---	PASS
ELOVL4	6785	broad.mit.edu	37	6	80631524	80631524	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:80631524G>A	uc003pja.3	-						ELOVL4_uc011dyt.1_Intron	NM_022726	NP_073563	Q9GZR5	ELOV4_HUMAN	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)	CTGTAAAAAGGGAAAGCGTGT	0.328													8	9	---	---	---	---	PASS
ME1	4199	broad.mit.edu	37	6	83921765	83921765	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:83921765G>A	uc003pjy.2	-	14	1703	c.1597C>T	c.(1597-1599)CCG>TCG	p.P533S	ME1_uc011dzb.1_Missense_Mutation_p.P458S|ME1_uc011dzc.1_Missense_Mutation_p.P367S	NM_002395	NP_002386	P48163	MAOX_HUMAN	cytosolic malic enzyme 1	533					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)	TTGTTTTGCGGTTCAGGATAA	0.343													19	43	---	---	---	---	PASS
TBX18	9096	broad.mit.edu	37	6	85446757	85446757	+	Silent	SNP	C	A	A	rs139629340	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:85446757C>A	uc003pkl.1	-	8	1470	c.1470G>T	c.(1468-1470)TCG>TCT	p.S490S	TBX18_uc010kbq.1_Intron	NM_001080508	NP_001073977	O95935	TBX18_HUMAN	T-box 18	490					multicellular organismal development	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|pancreas(2)|lung(1)	5		all_cancers(76;0.000283)|Acute lymphoblastic leukemia(125;3.66e-08)|all_hematologic(105;8.61e-05)|all_epithelial(107;0.0858)		BRCA - Breast invasive adenocarcinoma(108;0.0267)		GGGACATTCCCGAAATCTGCA	0.532													5	136	---	---	---	---	PASS
SNX14	57231	broad.mit.edu	37	6	86223961	86223961	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:86223961G>A	uc003pkr.2	-						SNX14_uc003pkp.2_Intron|SNX14_uc003pkq.2_Intron|SNX14_uc011dzg.1_Intron|SNX14_uc003pks.2_Intron|SNX14_uc003pkt.2_Intron	NM_153816	NP_722523	Q9Y5W7	SNX14_HUMAN	sorting nexin 14 isoform a						cell communication|protein transport	integral to membrane	phosphatidylinositol binding|signal transducer activity				0		all_cancers(76;4.83e-07)|Acute lymphoblastic leukemia(125;3.3e-08)|Prostate(29;2.55e-07)|all_hematologic(105;3.66e-05)|all_epithelial(107;0.000695)|Lung NSC(302;0.197)|all_lung(197;0.24)		BRCA - Breast invasive adenocarcinoma(108;0.0423)		TCCTGAGAAAGGATCAAATGG	0.368													19	24	---	---	---	---	PASS
SNX14	57231	broad.mit.edu	37	6	86227558	86227558	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:86227558G>A	uc003pkr.2	-	23	2377	c.2184C>T	c.(2182-2184)TTC>TTT	p.F728F	SNX14_uc003pkp.2_Silent_p.F591F|SNX14_uc003pkq.2_Silent_p.F334F|SNX14_uc011dzg.1_Silent_p.F676F|SNX14_uc003pks.2_Silent_p.F675F|SNX14_uc003pkt.2_Silent_p.F719F	NM_153816	NP_722523	Q9Y5W7	SNX14_HUMAN	sorting nexin 14 isoform a	728					cell communication|protein transport	integral to membrane	phosphatidylinositol binding|signal transducer activity				0		all_cancers(76;4.83e-07)|Acute lymphoblastic leukemia(125;3.3e-08)|Prostate(29;2.55e-07)|all_hematologic(105;3.66e-05)|all_epithelial(107;0.000695)|Lung NSC(302;0.197)|all_lung(197;0.24)		BRCA - Breast invasive adenocarcinoma(108;0.0423)		AAGAATTAATGAAATTCATGA	0.343													12	36	---	---	---	---	PASS
SNX14	57231	broad.mit.edu	37	6	86256914	86256914	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:86256914C>T	uc003pkr.2	-	12	1217	c.1024G>A	c.(1024-1026)GAG>AAG	p.E342K	SNX14_uc003pkp.2_Missense_Mutation_p.E205K|SNX14_uc003pkq.2_5'UTR|SNX14_uc011dzg.1_Missense_Mutation_p.E290K|SNX14_uc003pks.2_Missense_Mutation_p.E298K|SNX14_uc003pkt.2_Missense_Mutation_p.E342K	NM_153816	NP_722523	Q9Y5W7	SNX14_HUMAN	sorting nexin 14 isoform a	342	RGS.				cell communication|protein transport	integral to membrane	phosphatidylinositol binding|signal transducer activity				0		all_cancers(76;4.83e-07)|Acute lymphoblastic leukemia(125;3.3e-08)|Prostate(29;2.55e-07)|all_hematologic(105;3.66e-05)|all_epithelial(107;0.000695)|Lung NSC(302;0.197)|all_lung(197;0.24)		BRCA - Breast invasive adenocarcinoma(108;0.0423)		TCTTGTTGCTCTCTGATTTGC	0.348													11	29	---	---	---	---	PASS
C6orf165	154313	broad.mit.edu	37	6	88170890	88170890	+	Intron	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:88170890A>G	uc003plv.2	+						SLC35A1_uc003plx.2_Intron|C6orf165_uc003plw.2_Intron|C6orf165_uc010kbv.1_Intron	NM_001031743	NP_001026913	Q8IYR0	CF165_HUMAN	hypothetical protein LOC154313 isoform 1											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)		ATTGGTTTGTAACAATACTTT	0.279													15	21	---	---	---	---	PASS
SPACA1	81833	broad.mit.edu	37	6	88773909	88773909	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:88773909T>G	uc003pmn.2	+	6	820	c.703T>G	c.(703-705)TTC>GTC	p.F235V		NM_030960	NP_112222	Q9HBV2	SACA1_HUMAN	sperm acrosome associated 1 precursor	235	Helical; (Potential).					integral to membrane					0		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;0.11)		ATTTATAATTTTCTTATTGAT	0.388													24	38	---	---	---	---	PASS
MDN1	23195	broad.mit.edu	37	6	90420499	90420499	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:90420499G>A	uc003pnn.1	-	50	7782	c.7666C>T	c.(7666-7668)CAT>TAT	p.H2556Y		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	2556					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)		GCTTCCAAATGAATTTGTATG	0.303													11	10	---	---	---	---	PASS
MDN1	23195	broad.mit.edu	37	6	90450000	90450000	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:90450000G>A	uc003pnn.1	-	32	4662	c.4546C>T	c.(4546-4548)CGT>TGT	p.R1516C		NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	1516					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)		GCTAGAATACGAAATTTTTTC	0.408													17	52	---	---	---	---	PASS
MDN1	23195	broad.mit.edu	37	6	90499892	90499892	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:90499892G>A	uc003pnn.1	-	6	1200	c.1084C>T	c.(1084-1086)CAG>TAG	p.Q362*	MDN1_uc003pnp.1_Nonsense_Mutation_p.Q362*	NM_014611	NP_055426	Q9NU22	MDN1_HUMAN	MDN1, midasin homolog	362					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)		CTGTCAGTCTGATCTCCAAGC	0.378													41	73	---	---	---	---	PASS
GJA10	84694	broad.mit.edu	37	6	90605530	90605530	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:90605530G>A	uc011eaa.1	+	1	1343	c.1343G>A	c.(1342-1344)GGA>GAA	p.G448E		NM_032602	NP_115991	Q969M2	CXA10_HUMAN	gap junction protein, alpha 10	448	Cytoplasmic (Potential).				synaptic transmission	connexon complex|integral to membrane	gap junction channel activity				0		all_cancers(76;5.71e-06)|Acute lymphoblastic leukemia(125;2.23e-10)|Prostate(29;5.55e-10)|all_hematologic(105;2.42e-06)|all_epithelial(107;0.00527)		BRCA - Breast invasive adenocarcinoma(108;0.0915)		AGTGACTCAGGAAGCTCTGGT	0.527													20	63	---	---	---	---	PASS
BACH2	60468	broad.mit.edu	37	6	90642522	90642522	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:90642522G>T	uc011eab.1	-	9	2940	c.2131C>A	c.(2131-2133)CAG>AAG	p.Q711K	BACH2_uc003pnw.2_Missense_Mutation_p.Q711K	NM_021813	NP_068585	Q9BYV9	BACH2_HUMAN	BTB and CNC homology 1, basic leucine zipper	711						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)		CAAACTTCCTGGGAAAGGCAG	0.542													4	43	---	---	---	---	PASS
EPHA7	2045	broad.mit.edu	37	6	93956676	93956676	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:93956676G>A	uc003poe.2	-	15	2801	c.2560C>T	c.(2560-2562)CGT>TGT	p.R854C	EPHA7_uc003pof.2_Missense_Mutation_p.R849C|EPHA7_uc011eac.1_Missense_Mutation_p.R850C	NM_004440	NP_004431	Q15375	EPHA7_HUMAN	ephrin receptor EphA7 precursor	854	Cytoplasmic (Potential).|Protein kinase.					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)		GCTGGTAAACGATAACCTTCT	0.393													8	19	---	---	---	---	PASS
EPHA7	2045	broad.mit.edu	37	6	94120501	94120501	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:94120501G>A	uc003poe.2	-	3	791	c.550C>T	c.(550-552)CTT>TTT	p.L184F	EPHA7_uc003pof.2_Missense_Mutation_p.L184F|EPHA7_uc011eac.1_Missense_Mutation_p.L184F|EPHA7_uc003pog.3_Missense_Mutation_p.L184F	NM_004440	NP_004431	Q15375	EPHA7_HUMAN	ephrin receptor EphA7 precursor	184	Extracellular (Potential).					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)		TGAAAGGCAAGATAGAATCCC	0.418													10	45	---	---	---	---	PASS
EPHA7	2045	broad.mit.edu	37	6	94120690	94120690	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:94120690C>T	uc003poe.2	-	3	602	c.361G>A	c.(361-363)GAA>AAA	p.E121K	EPHA7_uc003pof.2_Missense_Mutation_p.E121K|EPHA7_uc011eac.1_Missense_Mutation_p.E121K|EPHA7_uc003pog.3_Missense_Mutation_p.E121K	NM_004440	NP_004431	Q15375	EPHA7_HUMAN	ephrin receptor EphA7 precursor	121	Extracellular (Potential).					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)		TTAAATGTTTCCTTGCAAGTT	0.368													25	36	---	---	---	---	PASS
MANEA	79694	broad.mit.edu	37	6	96053795	96053795	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:96053795C>T	uc003poo.1	+	5	1043	c.903C>T	c.(901-903)GCC>GCT	p.A301A		NM_024641	NP_078917	Q5SRI9	MANEA_HUMAN	mannosidase, endo-alpha	301	Catalytic (Probable).|Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	glycoprotein endo-alpha-1,2-mannosidase activity			ovary(2)|breast(1)	3		all_cancers(76;1.01e-06)|Acute lymphoblastic leukemia(125;3.58e-09)|all_hematologic(75;1.22e-06)|all_epithelial(107;0.00433)|Colorectal(196;0.0341)		BRCA - Breast invasive adenocarcinoma(108;0.148)		TGTTTATTGCCCTTCTGGTAG	0.378													14	36	---	---	---	---	PASS
MANEA	79694	broad.mit.edu	37	6	96053988	96053988	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:96053988C>T	uc003poo.1	+	5	1236	c.1096C>T	c.(1096-1098)CGT>TGT	p.R366C		NM_024641	NP_078917	Q5SRI9	MANEA_HUMAN	mannosidase, endo-alpha	366	Catalytic (Probable).|Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi membrane|integral to membrane	glycoprotein endo-alpha-1,2-mannosidase activity			ovary(2)|breast(1)	3		all_cancers(76;1.01e-06)|Acute lymphoblastic leukemia(125;3.58e-09)|all_hematologic(75;1.22e-06)|all_epithelial(107;0.00433)|Colorectal(196;0.0341)		BRCA - Breast invasive adenocarcinoma(108;0.148)		TACCAGCATCCGTCCATGGAA	0.418													42	86	---	---	---	---	PASS
KLHL32	114792	broad.mit.edu	37	6	97512602	97512602	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:97512602G>A	uc010kcm.1	+	5	883	c.411G>A	c.(409-411)CAG>CAA	p.Q137Q	KLHL32_uc003poy.2_Silent_p.Q137Q|KLHL32_uc011ead.1_Silent_p.Q101Q|KLHL32_uc003poz.2_Missense_Mutation_p.G8S|KLHL32_uc011eae.1_Intron|KLHL32_uc003ppa.2_RNA	NM_052904	NP_443136	Q96NJ5	KLH32_HUMAN	kelch-like 32	137										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)		ATCTCATCCAGGTATGTGAGC	0.512													9	19	---	---	---	---	PASS
C6orf167	253714	broad.mit.edu	37	6	97715802	97715802	+	Missense_Mutation	SNP	A	T	T	rs142406880		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:97715802A>T	uc003ppb.2	-	8	1040	c.774T>A	c.(772-774)CAT>CAA	p.H258Q	C6orf167_uc011eaf.1_Missense_Mutation_p.H258Q|C6orf167_uc010kcn.1_Missense_Mutation_p.H32Q|C6orf167_uc010kco.1_Missense_Mutation_p.H32Q|C6orf167_uc003ppc.2_Missense_Mutation_p.H258Q	NM_198468	NP_940870	Q6ZRQ5	MMS22_HUMAN	hypothetical protein LOC253714	258					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)		GAGTTTCACAATGTTCTTCAA	0.323													3	10	---	---	---	---	PASS
MCHR2	84539	broad.mit.edu	37	6	100368897	100368897	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:100368897C>T	uc003pqh.1	-	6	1257	c.942G>A	c.(940-942)CAG>CAA	p.Q314Q	MCHR2_uc003pqi.1_Silent_p.Q314Q	NM_001040179	NP_001035269	Q969V1	MCHR2_HUMAN	melanin-concentrating hormone receptor 2	314	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity	p.Q314R(1)		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)		GCAGACGTTTCTGGAAATTTC	0.438													34	63	---	---	---	---	PASS
PDSS2	57107	broad.mit.edu	37	6	107595288	107595288	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:107595288C>T	uc003prt.2	-	3	865	c.575G>A	c.(574-576)GGA>GAA	p.G192E	PDSS2_uc011eak.1_Missense_Mutation_p.G56E|PDSS2_uc011eal.1_Missense_Mutation_p.G192E|PDSS2_uc003pru.2_Missense_Mutation_p.G192E|PDSS2_uc003prv.2_Missense_Mutation_p.G192E	NM_020381	NP_065114	Q86YH6	DLP1_HUMAN	prenyl diphosphate synthase, subunit 2	192					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)		AAGAAAGTCTCCACTCAGGAT	0.413													24	58	---	---	---	---	PASS
SOBP	55084	broad.mit.edu	37	6	107955308	107955308	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:107955308C>T	uc003prx.2	+	6	1764	c.1260C>T	c.(1258-1260)TCC>TCT	p.S420S		NM_018013	NP_060483	A7XYQ1	SOBP_HUMAN	sine oculis binding protein homolog	420	Pro-rich.						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)		ACCATGCCTCCAACCCCAACA	0.701													10	30	---	---	---	---	PASS
SOBP	55084	broad.mit.edu	37	6	107956400	107956400	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:107956400G>A	uc003prx.2	+	6	2856	c.2352G>A	c.(2350-2352)GGG>GGA	p.G784G		NM_018013	NP_060483	A7XYQ1	SOBP_HUMAN	sine oculis binding protein homolog	784							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)		ACCTGGACGGGGAGGCGGCCA	0.632													4	18	---	---	---	---	PASS
SCML4	256380	broad.mit.edu	37	6	108041962	108041962	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:108041962C>T	uc010kdf.2	-	6	1169	c.918G>A	c.(916-918)AGG>AGA	p.R306R	SCML4_uc003prz.3_Silent_p.R248R|SCML4_uc011eam.1_Silent_p.R306R|SCML4_uc003pry.3_Silent_p.R64R|SCML4_uc003psa.3_Silent_p.R277R	NM_198081	NP_932347	Q8N228	SCML4_HUMAN	sex comb on midleg-like 4	306	SAM.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		all_cancers(87;3.26e-06)|Acute lymphoblastic leukemia(125;3.08e-08)|all_hematologic(75;1.15e-06)|all_epithelial(87;0.00142)|Colorectal(196;0.0316)		BRCA - Breast invasive adenocarcinoma(108;0.01)|Epithelial(106;0.0509)|all cancers(137;0.0586)|OV - Ovarian serous cystadenocarcinoma(136;0.0758)		AGGCTGGAGGCCTCAGCCCAG	0.587													26	44	---	---	---	---	PASS
SCML4	256380	broad.mit.edu	37	6	108041963	108041963	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:108041963C>T	uc010kdf.2	-	6	1168	c.917G>A	c.(916-918)AGG>AAG	p.R306K	SCML4_uc003prz.3_Missense_Mutation_p.R248K|SCML4_uc011eam.1_Missense_Mutation_p.R306K|SCML4_uc003pry.3_Missense_Mutation_p.R64K|SCML4_uc003psa.3_Missense_Mutation_p.R277K	NM_198081	NP_932347	Q8N228	SCML4_HUMAN	sex comb on midleg-like 4	306	SAM.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(1)	1		all_cancers(87;3.26e-06)|Acute lymphoblastic leukemia(125;3.08e-08)|all_hematologic(75;1.15e-06)|all_epithelial(87;0.00142)|Colorectal(196;0.0316)		BRCA - Breast invasive adenocarcinoma(108;0.01)|Epithelial(106;0.0509)|all cancers(137;0.0586)|OV - Ovarian serous cystadenocarcinoma(136;0.0758)		GGCTGGAGGCCTCAGCCCAGG	0.587													27	44	---	---	---	---	PASS
ARMC2	84071	broad.mit.edu	37	6	109190081	109190081	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:109190081C>T	uc003pss.3	+	4	520	c.346C>T	c.(346-348)CCT>TCT	p.P116S	ARMC2_uc011eao.1_5'UTR	NM_032131	NP_115507	Q8NEN0	ARMC2_HUMAN	armadillo repeat containing 2	116							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)		CTTTTCCTTTCCTAAGCCCCC	0.517													13	30	---	---	---	---	PASS
AKD1	221264	broad.mit.edu	37	6	109818714	109818714	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:109818714G>A	uc003ptn.2	-	38	5346	c.5269C>T	c.(5269-5271)CGT>TGT	p.R1757C	AKD1_uc011eas.1_Missense_Mutation_p.R142C	NM_001145128	NP_001138600	Q5TCS8	AKD1_HUMAN	adenylate kinase domain containing 1 isoform 1	1757					nucleobase, nucleoside, nucleotide and nucleic acid metabolic process		ATP binding|nucleobase, nucleoside, nucleotide kinase activity|nucleoside-triphosphatase activity			ovary(1)	1						ATATATATACGATTATGATAT	0.229													9	29	---	---	---	---	PASS
WISP3	8838	broad.mit.edu	37	6	112382351	112382351	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:112382351G>A	uc003pvm.2	+	3	316	c.206G>A	c.(205-207)AGA>AAA	p.R69K	WISP3_uc003pvn.2_RNA|WISP3_uc003pvo.2_Missense_Mutation_p.R87K	NM_003880	NP_003871	O95389	WISP3_HUMAN	WNT1 inducible signaling pathway protein 3	69	IGFBP N-terminal.				cell-cell signaling|regulation of cell growth|signal transduction	extracellular region|soluble fraction	growth factor activity|insulin-like growth factor binding				0		all_cancers(87;0.000196)|Acute lymphoblastic leukemia(125;1.18e-05)|all_hematologic(75;0.000114)|all_epithelial(87;0.00542)|Colorectal(196;0.0209)		all cancers(137;0.0283)|OV - Ovarian serous cystadenocarcinoma(136;0.0613)|Epithelial(106;0.0827)|GBM - Glioblastoma multiforme(226;0.0972)|BRCA - Breast invasive adenocarcinoma(108;0.246)		AGCCTGGTGAGAGATGGCTGT	0.532													19	52	---	---	---	---	PASS
LAMA4	3910	broad.mit.edu	37	6	112453986	112453986	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:112453986G>A	uc003pvu.2	-	28	4112	c.3803C>T	c.(3802-3804)CCA>CTA	p.P1268L	LAMA4_uc003pvv.2_Missense_Mutation_p.P1261L|LAMA4_uc003pvt.2_Missense_Mutation_p.P1261L	NM_001105206	NP_001098676	Q16363	LAMA4_HUMAN	laminin, alpha 4 isoform 1 precursor	1268	Laminin G-like 3.				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)		TAACCCATTTGGTTGTAATGT	0.328													17	37	---	---	---	---	PASS
HS3ST5	222537	broad.mit.edu	37	6	114378554	114378554	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:114378554T>C	uc003pwg.3	-	2	940	c.908A>G	c.(907-909)AAG>AGG	p.K303R	uc003pwf.2_Intron|HS3ST5_uc003pwh.3_Missense_Mutation_p.K303R	NM_153612	NP_705840	Q8IZT8	HS3S5_HUMAN	heparan sulfate (glucosamine)	303	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)		CGCCAGGCACTTATTAAAGAT	0.398													19	46	---	---	---	---	PASS
FAM26D	221301	broad.mit.edu	37	6	116879198	116879198	+	Missense_Mutation	SNP	G	T	T	rs151332485		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:116879198G>T	uc003pxa.2	+	4	639	c.340G>T	c.(340-342)GGG>TGG	p.G114W	FAM26D_uc003pwz.2_Missense_Mutation_p.G71W|FAM26D_uc010ked.2_Missense_Mutation_p.G113W	NM_153036	NP_694581	Q5JW98	FA26D_HUMAN	hypothetical protein LOC221301	257						integral to membrane					0		all_cancers(87;0.0314)|all_epithelial(87;0.0216)|Colorectal(196;0.234)		GBM - Glioblastoma multiforme(226;0.0258)|all cancers(137;0.0458)|OV - Ovarian serous cystadenocarcinoma(136;0.0694)|Epithelial(106;0.222)		CTTCATTCCCGGGAGTGAAGA	0.473													4	113	---	---	---	---	PASS
GPRC6A	222545	broad.mit.edu	37	6	117114012	117114012	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:117114012G>A	uc003pxj.1	-	6	2096	c.2074C>T	c.(2074-2076)CCC>TCC	p.P692S	GPRC6A_uc003pxk.1_Missense_Mutation_p.P517S|GPRC6A_uc003pxl.1_Missense_Mutation_p.P621S	NM_148963	NP_683766	Q5T6X5	GPC6A_HUMAN	G protein-coupled receptor, family C, group 6,	692	Cytoplasmic (Potential).				response to amino acid stimulus		G-protein coupled receptor activity			ovary(4)|skin(2)	6		all_cancers(87;0.0314)|all_epithelial(87;0.0216)|Colorectal(196;0.234)		GBM - Glioblastoma multiforme(226;0.0265)|all cancers(137;0.0554)|OV - Ovarian serous cystadenocarcinoma(136;0.07)		TGTAATTTGGGATCAAAGCTG	0.413													16	43	---	---	---	---	PASS
RFX6	222546	broad.mit.edu	37	6	117232185	117232185	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:117232185G>A	uc003pxm.2	+	7	823	c.760G>A	c.(760-762)GGA>AGA	p.G254R		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	254					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						TGTATACCAAGGATGCATTTC	0.383													21	56	---	---	---	---	PASS
RFX6	222546	broad.mit.edu	37	6	117232186	117232186	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:117232186G>A	uc003pxm.2	+	7	824	c.761G>A	c.(760-762)GGA>GAA	p.G254E		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	254					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						GTATACCAAGGATGCATTTCT	0.388													21	57	---	---	---	---	PASS
RFX6	222546	broad.mit.edu	37	6	117237248	117237248	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:117237248G>A	uc003pxm.2	+	8	921	c.858G>A	c.(856-858)GAG>GAA	p.E286E		NM_173560	NP_775831	Q8HWS3	RFX6_HUMAN	regulatory factor X, 6	286					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						ACTTTGAAGAGGTAAGAATGA	0.308													19	35	---	---	---	---	PASS
ROS1	6098	broad.mit.edu	37	6	117632191	117632191	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:117632191G>A	uc003pxp.1	-	39	6424	c.6225C>T	c.(6223-6225)TTC>TTT	p.F2075F	ROS1_uc011ebi.1_RNA	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	2075	Protein kinase.|Cytoplasmic (Potential).				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)		ACCTGTGAATGAAATGCATCC	0.378			T	GOPC|ROS1	glioblastoma|NSCLC								22	32	---	---	---	---	PASS
ROS1	6098	broad.mit.edu	37	6	117663580	117663580	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:117663580C>T	uc003pxp.1	-	28	4851	c.4652G>A	c.(4651-4653)GGA>GAA	p.G1551E	ROS1_uc011ebi.1_RNA|GOPC_uc003pxq.1_Intron	NM_002944	NP_002935	P08922	ROS_HUMAN	proto-oncogene c-ros-1 protein precursor	1551	Extracellular (Potential).				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)		TTTAGTTTTTCCCCAAATCTC	0.313			T	GOPC|ROS1	glioblastoma|NSCLC								11	38	---	---	---	---	PASS
FAM184A	79632	broad.mit.edu	37	6	119338100	119338100	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:119338100C>T	uc003pyj.2	-	5	1690	c.1342G>A	c.(1342-1344)GAA>AAA	p.E448K	FAM184A_uc003pyk.3_Missense_Mutation_p.E328K|FAM184A_uc003pyl.3_Missense_Mutation_p.E328K	NM_024581	NP_078857	Q8NB25	F184A_HUMAN	hypothetical protein LOC79632 isoform 1	448	Potential.									ovary(2)|central_nervous_system(2)|skin(2)|pancreas(1)	7						CTCTTTGCTTCATTTACTTTC	0.333													5	22	---	---	---	---	PASS
C6orf170	221322	broad.mit.edu	37	6	121577360	121577360	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:121577360C>T	uc003pyo.1	-	16	1873	c.1805G>A	c.(1804-1806)GGA>GAA	p.G602E	C6orf170_uc003pyq.1_RNA|C6orf170_uc003pyp.1_Missense_Mutation_p.G121E	NM_152730	NP_689943	Q96NH3	BROMI_HUMAN	hypothetical protein LOC221322	602					multicellular organismal development	cilium|cytoplasm	Rab GTPase activator activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(226;0.00521)		CATTTCTGATCCAGAAAATAT	0.348													14	24	---	---	---	---	PASS
RNF217	154214	broad.mit.edu	37	6	125283976	125283976	+	5'UTR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:125283976C>T	uc003pzr.2	+	1					STL_uc003pzq.2_RNA			Q8TC41	RN217_HUMAN	SubName: Full=IBR domain containing 1, isoform CRA_e; SubName: Full=cDNA FLJ16403 fis, clone UTERU2006568, highly similar to IBR domain-containing protein 1;						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)		CACCGGGCCTCTCAATCCCCA	0.687													6	20	---	---	---	---	PASS
C6orf174	387104	broad.mit.edu	37	6	127794487	127794487	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:127794487G>A	uc003qbd.2	-	7	3648	c.2783C>T	c.(2782-2784)TCA>TTA	p.S928L	C6orf174_uc003qbc.2_5'UTR	NM_001012279	NP_001012279	Q5TF21	CF174_HUMAN	hypothetical protein LOC387104 precursor	928	Helical; (Potential).					integral to membrane				breast(3)|ovary(2)|skin(1)	6				GBM - Glioblastoma multiforme(226;0.026)|all cancers(137;0.161)		GTAAGAAAGTGATGAAAATAA	0.274													7	20	---	---	---	---	PASS
THEMIS	387357	broad.mit.edu	37	6	128134147	128134147	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:128134147C>T	uc003qbi.2	-	5	1958	c.1639G>A	c.(1639-1641)GAA>AAA	p.E547K	THEMIS_uc010kfa.2_Missense_Mutation_p.E450K|THEMIS_uc011ebt.1_Missense_Mutation_p.E547K|THEMIS_uc010kfb.2_Missense_Mutation_p.E512K	NM_001010923	NP_001010923	Q8N1K5	THMS1_HUMAN	thymocyte selection pathway associated isoform	547					negative T cell selection|positive T cell selection|T cell receptor signaling pathway	cytoplasm|nucleus				ovary(2)|skin(2)	4						GCTGAGCTTTCATATCTCCGC	0.458													19	38	---	---	---	---	PASS
C6orf191	253582	broad.mit.edu	37	6	130152517	130152517	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:130152517G>A	uc003qbs.2	-	5	417	c.334C>T	c.(334-336)CCC>TCC	p.P112S		NM_001010876	NP_001010876	Q5VVB8	CF191_HUMAN	hypothetical protein LOC253582	112	Helical; (Potential).					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)		GATGTCAAGGGGAATTCCAAC	0.299													9	25	---	---	---	---	PASS
AKAP7	9465	broad.mit.edu	37	6	131481248	131481248	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:131481248G>A	uc003qck.2	+	3	234	c.201G>A	c.(199-201)TGG>TGA	p.W67*	AKAP7_uc011ebz.1_Nonsense_Mutation_p.W45*	NM_016377	NP_057461	O43687	AKA7A_HUMAN	A-kinase anchor protein 7 isoform gamma	Error:Variant_position_missing_in_O43687_after_alignment					intracellular signal transduction|ion transport	apical plasma membrane|intracellular|lateral plasma membrane	protein kinase A binding			ovary(2)	2	Breast(56;0.152)			GBM - Glioblastoma multiforme(226;0.0184)|OV - Ovarian serous cystadenocarcinoma(155;0.0345)		AAAATGAATGGGTCAAGAGTG	0.318													15	30	---	---	---	---	PASS
ARG1	383	broad.mit.edu	37	6	131904928	131904928	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:131904928G>A	uc003qcp.1	+	8	907	c.849G>A	c.(847-849)GGG>GGA	p.G283G	ARG1_uc003qco.1_Intron|ARG1_uc010kfm.1_Silent_p.G291G|MED23_uc003qcq.2_Intron	NM_000045	NP_000036	P05089	ARGI1_HUMAN	arginase 1	283					arginine catabolic process|urea cycle	cytosol	arginase activity			ovary(1)	1	Breast(56;0.0753)			GBM - Glioblastoma multiforme(226;0.0106)|OV - Ovarian serous cystadenocarcinoma(155;0.0713)	L-Ornithine(DB00129)	CATCCCTGGGGAAGACACCAG	0.398													11	27	---	---	---	---	PASS
CTGF	1490	broad.mit.edu	37	6	132271549	132271549	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:132271549G>A	uc003qcz.2	-	3	630	c.424C>T	c.(424-426)CGT>TGT	p.R142C		NM_001901	NP_001892	P29279	CTGF_HUMAN	connective tissue growth factor precursor	142	VWFC.				cellular lipid metabolic process|DNA replication|epidermis development|regulation of cell growth|response to wounding	plasma membrane|proteinaceous extracellular matrix	heparin binding|insulin-like growth factor binding				0	Breast(56;0.0602)			GBM - Glioblastoma multiforme(226;0.015)|OV - Ovarian serous cystadenocarcinoma(155;0.0169)		CTGGGCAGACGAACGTCCATG	0.652											OREG0017666	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	12	29	---	---	---	---	PASS
TAAR6	319100	broad.mit.edu	37	6	132891844	132891844	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:132891844C>T	uc011eck.1	+	1	384	c.384C>T	c.(382-384)ATC>ATT	p.I128I		NM_175067	NP_778237	Q96RI8	TAAR6_HUMAN	trace amine associated receptor 6	128	Helical; Name=3; (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)		TCATCTCCATCGACAGGTACA	0.483													65	136	---	---	---	---	PASS
TAAR6	319100	broad.mit.edu	37	6	132891934	132891934	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:132891934C>T	uc011eck.1	+	1	474	c.474C>T	c.(472-474)ATC>ATT	p.I158I		NM_175067	NP_778237	Q96RI8	TAAR6_HUMAN	trace amine associated receptor 6	158	Helical; Name=4; (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)		TGTCCTGGATCCTGCCCCTCA	0.502													49	120	---	---	---	---	PASS
EYA4	2070	broad.mit.edu	37	6	133849888	133849888	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:133849888C>T	uc003qec.3	+	20	2323	c.1865C>T	c.(1864-1866)TCC>TTC	p.S622F	EYA4_uc011ecq.1_Missense_Mutation_p.S568F|EYA4_uc011ecr.1_Intron|EYA4_uc003qed.3_Missense_Mutation_p.S622F|EYA4_uc003qee.3_Missense_Mutation_p.S599F|EYA4_uc011ecs.1_Missense_Mutation_p.S628F|uc003qeg.1_Intron	NM_004100	NP_004091	O95677	EYA4_HUMAN	eyes absent 4 isoform a	622					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)		TGGAGGATATCCAGTCACTCA	0.328													49	149	---	---	---	---	PASS
SGK1	6446	broad.mit.edu	37	6	134498811	134498811	+	5'Flank	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:134498811G>A	uc003qen.3	-						SGK1_uc003qeo.3_Intron|SGK1_uc011ect.1_5'Flank|SGK1_uc011ecu.1_5'Flank|SGK1_uc011ecv.1_5'Flank|SGK1_uc011ecw.1_Silent_p.P50P	NM_005627	NP_005618	O00141	SGK1_HUMAN	serum/glucocorticoid regulated kinase 1 isoform						apoptosis|response to stress|sodium ion transport	endoplasmic reticulum|nucleus|plasma membrane	ATP binding|protein binding|protein serine/threonine kinase activity			skin(3)|stomach(1)|lung(1)|central_nervous_system(1)	6	Colorectal(23;0.221)			OV - Ovarian serous cystadenocarcinoma(155;0.00317)|GBM - Glioblastoma multiforme(68;0.00847)		CTTTCAAAGGGGGTTTTATAG	0.478													16	37	---	---	---	---	PASS
BCLAF1	9774	broad.mit.edu	37	6	136582572	136582572	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:136582572C>T	uc003qgx.1	-	12	2841	c.2588G>A	c.(2587-2589)GGA>GAA	p.G863E	BCLAF1_uc011edb.1_Missense_Mutation_p.G142E|BCLAF1_uc003qgw.1_Missense_Mutation_p.G690E|BCLAF1_uc003qgy.1_Missense_Mutation_p.G812E|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Missense_Mutation_p.G861E	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	863					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)		ACGACCTCTTCCTCTTTTGGC	0.408													14	157	---	---	---	---	PASS
BCLAF1	9774	broad.mit.edu	37	6	136599155	136599155	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:136599155C>T	uc003qgx.1	-	4	1117	c.864G>A	c.(862-864)CAG>CAA	p.Q288Q	BCLAF1_uc003qgw.1_Silent_p.Q288Q|BCLAF1_uc003qgy.1_Silent_p.Q286Q|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Silent_p.Q286Q	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	288					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)		TTGGACTATTCTGAGAAGGAC	0.453													15	43	---	---	---	---	PASS
BCLAF1	9774	broad.mit.edu	37	6	136599223	136599223	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:136599223G>A	uc003qgx.1	-	4	1049	c.796C>T	c.(796-798)CAG>TAG	p.Q266*	BCLAF1_uc003qgw.1_Nonsense_Mutation_p.Q266*|BCLAF1_uc003qgy.1_Nonsense_Mutation_p.Q264*|BCLAF1_uc011edc.1_RNA|BCLAF1_uc011edd.1_RNA|BCLAF1_uc011ede.1_Nonsense_Mutation_p.Q264*	NM_014739	NP_055554	Q9NYF8	BCLF1_HUMAN	BCL2-associated transcription factor 1 isoform	266					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)		GGACTATGCTGAATGGAATGT	0.448													7	64	---	---	---	---	PASS
MAP7	9053	broad.mit.edu	37	6	136710541	136710541	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:136710541C>T	uc003qgz.2	-	4	605	c.359G>A	c.(358-360)AGG>AAG	p.R120K	MAP7_uc011edf.1_Missense_Mutation_p.R105K|MAP7_uc011edg.1_Missense_Mutation_p.R142K|MAP7_uc010kgu.2_Missense_Mutation_p.R142K|MAP7_uc011edh.1_Missense_Mutation_p.R142K|MAP7_uc010kgv.2_Missense_Mutation_p.R142K|MAP7_uc010kgs.2_5'UTR|MAP7_uc011edi.1_5'UTR|MAP7_uc010kgq.1_Intron|MAP7_uc003qha.1_Missense_Mutation_p.R120K|MAP7_uc010kgr.2_Intron|MAP7_uc010kgt.2_Missense_Mutation_p.R142K	NM_003980	NP_003971	Q14244	MAP7_HUMAN	microtubule-associated protein 7	120	Potential.				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)		AGCAGCCCTCCTCCGCTCCTC	0.582													36	75	---	---	---	---	PASS
SLC35D3	340146	broad.mit.edu	37	6	137245608	137245608	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:137245608G>A	uc003qhe.2	+	2	1190	c.1025G>A	c.(1024-1026)GGA>GAA	p.G342E		NM_001008783	NP_001008783	Q5M8T2	S35D3_HUMAN	solute carrier family 35, member D3	342					carbohydrate transport	integral to membrane				ovary(1)|central_nervous_system(1)	2	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000136)|OV - Ovarian serous cystadenocarcinoma(155;0.00365)		GGGGAGGGAGGAAATGGCCGG	0.687													13	11	---	---	---	---	PASS
IFNGR1	3459	broad.mit.edu	37	6	137519347	137519347	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:137519347G>A	uc003qho.2	-	7	1394	c.1291C>T	c.(1291-1293)CCC>TCC	p.P431S	IFNGR1_uc011edm.1_Missense_Mutation_p.P403S	NM_000416	NP_000407	P15260	INGR1_HUMAN	interferon gamma receptor 1 precursor	431	Cytoplasmic (Potential).				regulation of interferon-gamma-mediated signaling pathway|response to virus	integral to plasma membrane	interferon-gamma receptor activity			upper_aerodigestive_tract(1)	1	Colorectal(23;0.24)			GBM - Glioblastoma multiforme(68;0.000829)|OV - Ovarian serous cystadenocarcinoma(155;0.00389)	Interferon gamma-1b(DB00033)	TTATTTGGGGGAAATTCTGAG	0.398													10	28	---	---	---	---	PASS
TNFAIP3	7128	broad.mit.edu	37	6	138199982	138199982	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:138199982C>A	uc003qhr.2	+	7	1466	c.1400C>A	c.(1399-1401)CCT>CAT	p.P467H	TNFAIP3_uc003qhs.2_Missense_Mutation_p.P467H	NM_006290	NP_006281	P21580	TNAP3_HUMAN	tumor necrosis factor, alpha-induced protein 3	467	Interaction with NAF1 (By similarity).				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)|p.P450fs*21(1)		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)		GCACCCAGCCCTTTTCTGTTC	0.617			D|N|F		marginal zone B-cell lymphomas|Hodgkin's lymphoma|primary mediastinal B cell lymphoma								5	10	---	---	---	---	PASS
CCDC28A	25901	broad.mit.edu	37	6	139094850	139094850	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:139094850G>A	uc003qie.2	+	1	194	c.39G>A	c.(37-39)CAG>CAA	p.Q13Q	uc003qid.1_5'Flank	NM_015439	NP_056254	Q8IWP9	CC28A_HUMAN	coiled-coil domain containing 28A	13											0				OV - Ovarian serous cystadenocarcinoma(155;0.000201)|GBM - Glioblastoma multiforme(68;0.000306)		TGGGGGAGCAGGAAAAGGCGG	0.612													19	44	---	---	---	---	PASS
CCDC28A	25901	broad.mit.edu	37	6	139094873	139094873	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:139094873G>A	uc003qie.2	+	1	217	c.62G>A	c.(61-63)GGG>GAG	p.G21E	uc003qid.1_5'Flank	NM_015439	NP_056254	Q8IWP9	CC28A_HUMAN	coiled-coil domain containing 28A	21											0				OV - Ovarian serous cystadenocarcinoma(155;0.000201)|GBM - Glioblastoma multiforme(68;0.000306)		CTTCCGCTTGGGGCATGGAGG	0.622													21	52	---	---	---	---	PASS
STX11	8676	broad.mit.edu	37	6	144508350	144508350	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:144508350G>A	uc003qks.3	+	2	778	c.586G>A	c.(586-588)GAC>AAC	p.D196N		NM_003764	NP_003755	O75558	STX11_HUMAN	syntaxin 11	196					cellular membrane fusion|intracellular protein transport|vesicle-mediated transport	Golgi apparatus|membrane	SNAP receptor activity			ovary(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(155;2.17e-06)|GBM - Glioblastoma multiforme(68;0.0492)		CTTGCTGGCCGACGTGAAGGG	0.637									Familial_Hemophagocytic_Lymphohistiocytosis				11	14	---	---	---	---	PASS
UTRN	7402	broad.mit.edu	37	6	145157481	145157481	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:145157481G>A	uc003qkt.2	+	70	9961	c.9869G>A	c.(9868-9870)CGA>CAA	p.R3290Q		NM_007124	NP_009055	P46939	UTRO_HUMAN	utrophin	3290					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)		CAGCACCTCCGAAGGGGGCTC	0.498													54	83	---	---	---	---	PASS
FBXO30	84085	broad.mit.edu	37	6	146125854	146125854	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:146125854G>A	uc003qla.2	-	2	1887	c.1688C>T	c.(1687-1689)ACC>ATC	p.T563I	uc003qky.1_Intron	NM_032145	NP_115521	Q8TB52	FBX30_HUMAN	F-box only protein 30	563							ubiquitin-protein ligase activity|zinc ion binding			ovary(2)|large_intestine(1)	3		Ovarian(120;0.0776)		OV - Ovarian serous cystadenocarcinoma(155;1.95e-07)|GBM - Glioblastoma multiforme(68;0.0149)		CTGAGAATAGGTACAACCATA	0.413													16	49	---	---	---	---	PASS
SHPRH	257218	broad.mit.edu	37	6	146264545	146264545	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:146264545G>T	uc003qlf.2	-	9	2371	c.1972C>A	c.(1972-1974)CGC>AGC	p.R658S	SHPRH_uc003qld.2_Missense_Mutation_p.R658S|SHPRH_uc003qle.2_Missense_Mutation_p.R658S|SHPRH_uc003qlg.1_Missense_Mutation_p.R214S|SHPRH_uc003qlj.1_Missense_Mutation_p.R547S	NM_001042683	NP_001036148	Q149N8	SHPRH_HUMAN	SNF2 histone linker PHD RING helicase isoform a	658	PHD-type.				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)		CACTCAAAGCGGTAATCAGAG	0.423													5	95	---	---	---	---	PASS
GRM1	2911	broad.mit.edu	37	6	146720028	146720028	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:146720028G>T	uc010khw.1	+	8	2323	c.1853G>T	c.(1852-1854)CGG>CTG	p.R618L	GRM1_uc010khv.1_Missense_Mutation_p.R618L|GRM1_uc003qll.2_Missense_Mutation_p.R618L|GRM1_uc011edz.1_Missense_Mutation_p.R618L|GRM1_uc011eea.1_Missense_Mutation_p.R618L	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	618	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)	GTACTGTACCGGGACACACCA	0.473													5	141	---	---	---	---	PASS
LATS1	9113	broad.mit.edu	37	6	149983369	149983369	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:149983369G>A	uc003qmu.1	-	8	3437	c.2889C>T	c.(2887-2889)ATC>ATT	p.I963I	LATS1_uc010kif.1_Silent_p.I858I	NM_004690	NP_004681	O95835	LATS1_HUMAN	LATS homolog 1	963	Protein kinase.				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)		TTTGCCAGTTGATAACCTTTA	0.348													22	27	---	---	---	---	PASS
PCMT1	5110	broad.mit.edu	37	6	150114676	150114676	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:150114676C>T	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)		ATTGTTTTCTCTTTTCCAGGT	0.328													21	14	---	---	---	---	PASS
PLEKHG1	57480	broad.mit.edu	37	6	151107560	151107560	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:151107560G>A	uc003qny.1	+	5	859	c.547G>A	c.(547-549)GAT>AAT	p.D183N	PLEKHG1_uc011eel.1_Missense_Mutation_p.D223N|PLEKHG1_uc011eem.1_Missense_Mutation_p.D242N|PLEKHG1_uc003qnz.2_Missense_Mutation_p.D183N	NM_001029884	NP_001025055	Q9ULL1	PKHG1_HUMAN	pleckstrin homology domain containing, family G	183	DH.				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)		CTGTGAAAATGATCCTGTGGC	0.373													22	34	---	---	---	---	PASS
AKAP12	9590	broad.mit.edu	37	6	151669885	151669885	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:151669885C>T	uc011eep.1	+	4	599	c.359C>T	c.(358-360)TCC>TTC	p.S120F	AKAP12_uc003qoe.2_Missense_Mutation_p.S120F|AKAP12_uc003qof.2_Missense_Mutation_p.S22F|AKAP12_uc010kim.2_Intron|AKAP12_uc003qog.2_Missense_Mutation_p.S15F	NM_005100	NP_005091	Q02952	AKA12_HUMAN	A kinase (PRKA) anchor protein 12 isoform 1	120					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)		AAAAGAGACTCCGATAAAGAG	0.453													8	22	---	---	---	---	PASS
AKAP12	9590	broad.mit.edu	37	6	151669886	151669886	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:151669886C>T	uc011eep.1	+	4	600	c.360C>T	c.(358-360)TCC>TCT	p.S120S	AKAP12_uc003qoe.2_Silent_p.S120S|AKAP12_uc003qof.2_Silent_p.S22S|AKAP12_uc010kim.2_Intron|AKAP12_uc003qog.2_Silent_p.S15S	NM_005100	NP_005091	Q02952	AKA12_HUMAN	A kinase (PRKA) anchor protein 12 isoform 1	120					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)		AAAGAGACTCCGATAAAGAGA	0.453													9	22	---	---	---	---	PASS
C6orf211	79624	broad.mit.edu	37	6	151790238	151790238	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:151790238C>T	uc003qok.1	+	5	1578	c.1319C>T	c.(1318-1320)CCC>CTC	p.P440L	C6orf211_uc011ees.1_Missense_Mutation_p.P321L	NM_024573	NP_078849	Q9H993	CF211_HUMAN	hypothetical protein LOC79624	440							protein binding				0			BRCA - Breast invasive adenocarcinoma(37;0.183)	OV - Ovarian serous cystadenocarcinoma(155;5.27e-11)		TACGATGGTCCCCTTTGACTT	0.517													6	8	---	---	---	---	PASS
ESR1	2099	broad.mit.edu	37	6	152415611	152415611	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:152415611C>T	uc003qom.3	+	9	1831	c.1461C>T	c.(1459-1461)ATC>ATT	p.I487I	ESR1_uc010kin.2_Silent_p.I487I|ESR1_uc010kio.2_Silent_p.I489I|ESR1_uc010kip.2_Silent_p.I486I|ESR1_uc003qon.3_Silent_p.I487I|ESR1_uc003qoo.3_Silent_p.I487I|ESR1_uc010kiq.2_Silent_p.I85I|ESR1_uc010kir.2_Silent_p.I226I|ESR1_uc011eet.1_Intron|ESR1_uc011eeu.1_Intron|ESR1_uc011eev.1_Silent_p.I72I|ESR1_uc011eew.1_Intron|ESR1_uc010kis.2_Silent_p.I156I|ESR1_uc011eex.1_Intron|ESR1_uc011eey.1_Intron	NM_001122742	NP_001116214	P03372	ESR1_HUMAN	estrogen receptor alpha isoform 4	487	Steroid-binding.|Interaction with AKAP13.				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)	ACACTTTGATCCACCTGATGG	0.572													27	42	---	---	---	---	PASS
ESR1	2099	broad.mit.edu	37	6	152415612	152415612	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:152415612C>T	uc003qom.3	+	9	1832	c.1462C>T	c.(1462-1464)CAC>TAC	p.H488Y	ESR1_uc010kin.2_Missense_Mutation_p.H488Y|ESR1_uc010kio.2_Missense_Mutation_p.H490Y|ESR1_uc010kip.2_Missense_Mutation_p.H487Y|ESR1_uc003qon.3_Missense_Mutation_p.H488Y|ESR1_uc003qoo.3_Missense_Mutation_p.H488Y|ESR1_uc010kiq.2_Missense_Mutation_p.H86Y|ESR1_uc010kir.2_Missense_Mutation_p.H227Y|ESR1_uc011eet.1_Intron|ESR1_uc011eeu.1_Intron|ESR1_uc011eev.1_Missense_Mutation_p.H73Y|ESR1_uc011eew.1_Intron|ESR1_uc010kis.2_Missense_Mutation_p.H157Y|ESR1_uc011eex.1_Intron|ESR1_uc011eey.1_Intron	NM_001122742	NP_001116214	P03372	ESR1_HUMAN	estrogen receptor alpha isoform 4	488	Steroid-binding.|Interaction with AKAP13.				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)	CACTTTGATCCACCTGATGGC	0.567													26	42	---	---	---	---	PASS
SYNE1	23345	broad.mit.edu	37	6	152605216	152605216	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:152605216G>A	uc010kiw.2	-	96	18706	c.18104C>T	c.(18103-18105)GCC>GTC	p.A6035V	SYNE1_uc010kiv.2_Missense_Mutation_p.A559V|SYNE1_uc003qos.3_Missense_Mutation_p.A559V|SYNE1_uc003qot.3_Missense_Mutation_p.A5964V|SYNE1_uc003qou.3_Missense_Mutation_p.A6035V|SYNE1_uc010kiy.1_Missense_Mutation_p.A214V	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	6035	Spectrin 20.|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)		CGCAGGGTCGGCCTCACAAGA	0.557										HNSCC(10;0.0054)			18	36	---	---	---	---	PASS
SYNE1	23345	broad.mit.edu	37	6	152631852	152631852	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:152631852G>A	uc010kiw.2	-	88	17469	c.16867C>T	c.(16867-16869)CGT>TGT	p.R5623C	SYNE1_uc010kiv.2_Missense_Mutation_p.R147C|SYNE1_uc003qos.3_Missense_Mutation_p.R147C|SYNE1_uc003qot.3_Missense_Mutation_p.R5552C|SYNE1_uc003qou.3_Missense_Mutation_p.R5623C	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	5623	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)		TTCTGCAAACGAATTTTGATC	0.373										HNSCC(10;0.0054)			8	20	---	---	---	---	PASS
SYNE1	23345	broad.mit.edu	37	6	152730358	152730358	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:152730358C>T	uc010kiw.2	-	44	6987	c.6385G>A	c.(6385-6387)GAA>AAA	p.E2129K	SYNE1_uc003qot.3_Missense_Mutation_p.E2136K|SYNE1_uc003qou.3_Missense_Mutation_p.E2129K|SYNE1_uc010kjb.1_Missense_Mutation_p.E2112K	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	2129	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)		TTGGCAGTTTCATGCTGTGGA	0.299										HNSCC(10;0.0054)			9	33	---	---	---	---	PASS
SYNE1	23345	broad.mit.edu	37	6	152765648	152765648	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:152765648G>A	uc010kiw.2	-	30	4337	c.3735C>T	c.(3733-3735)CTC>CTT	p.L1245L	SYNE1_uc003qot.3_Silent_p.L1252L|SYNE1_uc003qou.3_Silent_p.L1245L|SYNE1_uc010kjb.1_Silent_p.L1228L|SYNE1_uc003qow.2_Silent_p.L540L|SYNE1_uc003qox.1_Silent_p.L761L	NM_182961	NP_892006	Q8NF91	SYNE1_HUMAN	spectrin repeat containing, nuclear envelope 1	1245	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)		TTAATTCTTCGAGAGAATTTT	0.348										HNSCC(10;0.0054)			11	23	---	---	---	---	PASS
MYCT1	80177	broad.mit.edu	37	6	153043010	153043010	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:153043010G>A	uc003qpd.3	+	2	338	c.330G>A	c.(328-330)AGG>AGA	p.R110R	MYCT1_uc010kjc.1_Intron|MYCT1_uc003qpc.3_Silent_p.R110R	NM_025107	NP_079383	Q8N699	MYCT1_HUMAN	myc target 1	110	Bipartite nuclear localization signal (Potential).					nucleus				ovary(1)	1		Ovarian(120;0.0654)		OV - Ovarian serous cystadenocarcinoma(155;1.33e-10)|BRCA - Breast invasive adenocarcinoma(81;0.143)		GTTCAAGCAGGAGATCTAGGT	0.517													26	54	---	---	---	---	PASS
RGS17	26575	broad.mit.edu	37	6	153365058	153365058	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:153365058C>A	uc003qpm.2	-	2	252	c.96G>T	c.(94-96)TGG>TGT	p.W32C		NM_012419	NP_036551	Q9UGC6	RGS17_HUMAN	regulator of G-protein signalling 17	32	Poly-Cys.				negative regulation of signal transduction	cytoplasm|nucleus|plasma membrane	GTPase activator activity|signal transducer activity			pancreas(1)	1		Ovarian(120;0.126)		OV - Ovarian serous cystadenocarcinoma(155;1.09e-09)|BRCA - Breast invasive adenocarcinoma(81;0.0429)		AACAACAGCACCAACAAAAGC	0.507									Lung_Cancer_Familial_Clustering_of				42	90	---	---	---	---	PASS
OPRM1	4988	broad.mit.edu	37	6	154360940	154360940	+	Silent	SNP	A	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:154360940A>C	uc003qpr.2	+	1	498	c.261A>C	c.(259-261)GGA>GGC	p.G87G	OPRM1_uc011efb.1_Silent_p.G135G|OPRM1_uc011efc.1_Intron|OPRM1_uc011efd.1_Intron|OPRM1_uc011efe.1_Silent_p.G180G|OPRM1_uc003qpn.2_Silent_p.G87G|OPRM1_uc003qpo.1_Silent_p.G87G|OPRM1_uc011eff.1_Silent_p.G87G|OPRM1_uc011efg.1_Silent_p.G87G|OPRM1_uc011efh.1_Silent_p.G87G|OPRM1_uc003qpq.1_Silent_p.G87G|OPRM1_uc003qpt.1_Silent_p.G87G|OPRM1_uc011efi.1_Silent_p.G87G|OPRM1_uc003qpp.2_RNA|OPRM1_uc003qps.2_RNA	NM_000914	NP_000905	P35372	OPRM_HUMAN	opioid receptor, mu 1 isoform MOR-1	87	Helical; Name=1; (Potential).				behavior|negative regulation of cell proliferation|sensory perception	endoplasmic reticulum|Golgi apparatus|integral to plasma membrane	mu-opioid receptor activity|protein binding			ovary(1)	1		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;9.26e-11)|BRCA - Breast invasive adenocarcinoma(81;0.0154)	Alfentanil(DB00802)|Anileridine(DB00913)|Buprenorphine(DB00921)|Butorphanol(DB00611)|Codeine(DB00318)|Dezocine(DB01209)|Diphenoxylate(DB01081)|Fentanyl(DB00813)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Levallorphan(DB00504)|Levomethadyl Acetate(DB01227)|Levorphanol(DB00854)|Loperamide(DB00836)|Methadone(DB00333)|Methadyl Acetate(DB01433)|Morphine(DB00295)|Nalbuphine(DB00844)|Naloxone(DB01183)|Naltrexone(DB00704)|Oxycodone(DB00497)|Oxymorphone(DB01192)|Pentazocine(DB00652)|Propoxyphene(DB00647)|Remifentanil(DB00899)|Sufentanil(DB00708)|Tramadol(DB00193)	GGCTCTTCGGAAACTTCCTGG	0.587													7	26	---	---	---	---	PASS
OPRM1	4988	broad.mit.edu	37	6	154412509	154412509	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:154412509A>G	uc003qpr.2	+	3	1303	c.1066A>G	c.(1066-1068)ACC>GCC	p.T356A	OPRM1_uc011efc.1_Missense_Mutation_p.T275A|OPRM1_uc011efd.1_Missense_Mutation_p.T256A|OPRM1_uc011efe.1_Missense_Mutation_p.T449A|OPRM1_uc003qpn.2_Missense_Mutation_p.T356A|OPRM1_uc003qpo.1_Missense_Mutation_p.T356A|OPRM1_uc011eff.1_Missense_Mutation_p.T356A|OPRM1_uc011efg.1_Missense_Mutation_p.T356A|OPRM1_uc011efh.1_Missense_Mutation_p.T356A|OPRM1_uc003qpq.1_Missense_Mutation_p.T356A|OPRM1_uc003qpt.1_Missense_Mutation_p.T356A|OPRM1_uc011efi.1_Missense_Mutation_p.T356A|OPRM1_uc003qpp.2_RNA|OPRM1_uc003qps.2_RNA|OPRM1_uc010kjg.2_Missense_Mutation_p.T256A|OPRM1_uc003qpu.2_Missense_Mutation_p.T256A	NM_000914	NP_000905	P35372	OPRM_HUMAN	opioid receptor, mu 1 isoform MOR-1	356	Cytoplasmic (Potential).				behavior|negative regulation of cell proliferation|sensory perception	endoplasmic reticulum|Golgi apparatus|integral to plasma membrane	mu-opioid receptor activity|protein binding			ovary(1)	1		Ovarian(120;0.196)		OV - Ovarian serous cystadenocarcinoma(155;9.26e-11)|BRCA - Breast invasive adenocarcinoma(81;0.0154)	Alfentanil(DB00802)|Anileridine(DB00913)|Buprenorphine(DB00921)|Butorphanol(DB00611)|Codeine(DB00318)|Dezocine(DB01209)|Diphenoxylate(DB01081)|Fentanyl(DB00813)|Hydrocodone(DB00956)|Hydromorphone(DB00327)|Levallorphan(DB00504)|Levomethadyl Acetate(DB01227)|Levorphanol(DB00854)|Loperamide(DB00836)|Methadone(DB00333)|Methadyl Acetate(DB01433)|Morphine(DB00295)|Nalbuphine(DB00844)|Naloxone(DB01183)|Naltrexone(DB00704)|Oxycodone(DB00497)|Oxymorphone(DB01192)|Pentazocine(DB00652)|Propoxyphene(DB00647)|Remifentanil(DB00899)|Sufentanil(DB00708)|Tramadol(DB00193)	CTGTATCCCAACCTCTTCCAA	0.453													22	53	---	---	---	---	PASS
TIAM2	26230	broad.mit.edu	37	6	155571102	155571102	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:155571102A>C	uc003qqb.2	+	23	5223	c.3950A>C	c.(3949-3951)GAG>GCG	p.E1317A	TIAM2_uc003qqe.2_Missense_Mutation_p.E1317A|TIAM2_uc010kjj.2_Missense_Mutation_p.E850A|TIAM2_uc003qqf.2_Missense_Mutation_p.E693A|TIAM2_uc011efl.1_Missense_Mutation_p.E653A|TIAM2_uc003qqg.2_Missense_Mutation_p.E629A|TIAM2_uc003qqh.2_Missense_Mutation_p.E242A	NM_012454	NP_036586	Q8IVF5	TIAM2_HUMAN	T-cell lymphoma invasion and metastasis 2	1317					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)		ACAGAGAAGGAGGTCCGTGAG	0.527													19	35	---	---	---	---	PASS
NOX3	50508	broad.mit.edu	37	6	155761200	155761200	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:155761200C>T	uc003qqm.2	-	6	661	c.558G>A	c.(556-558)TTG>TTA	p.L186L		NM_015718	NP_056533	Q9HBY0	NOX3_HUMAN	NADPH oxidase 3	186	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)		AGGTCATGATCAAGACTAAAG	0.418													15	48	---	---	---	---	PASS
ARID1B	57492	broad.mit.edu	37	6	157150511	157150511	+	Missense_Mutation	SNP	C	T	T	rs143370913	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:157150511C>T	uc003qqn.2	+	2	1671	c.1519C>T	c.(1519-1521)CGG>TGG	p.R507W	ARID1B_uc003qqo.2_Missense_Mutation_p.R507W|ARID1B_uc003qqp.2_Missense_Mutation_p.R507W	NM_017519	NP_059989	Q8NFD5	ARI1B_HUMAN	AT rich interactive domain 1B (SWI1-like)	565					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)		CATCCAGGGTCGGACTCCCGG	0.582													13	14	---	---	---	---	PASS
SYNJ2	8871	broad.mit.edu	37	6	158497824	158497824	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:158497824C>T	uc003qqx.1	+						SYNJ2_uc003qqw.1_Intron|SYNJ2_uc003qqy.1_Intron|SYNJ2_uc003qqz.1_Intron|SYNJ2_uc003qra.1_Intron	NM_003898	NP_003889	O15056	SYNJ2_HUMAN	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)		GGTGAGGGGGCCGTGCCCGTT	0.562													5	10	---	---	---	---	PASS
SYNJ2	8871	broad.mit.edu	37	6	158497825	158497825	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:158497825C>T	uc003qqx.1	+						SYNJ2_uc003qqw.1_Intron|SYNJ2_uc003qqy.1_Intron|SYNJ2_uc003qqz.1_Intron|SYNJ2_uc003qra.1_Intron	NM_003898	NP_003889	O15056	SYNJ2_HUMAN	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)		GTGAGGGGGCCGTGCCCGTTC	0.557													5	10	---	---	---	---	PASS
TULP4	56995	broad.mit.edu	37	6	158924312	158924312	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:158924312C>T	uc003qrf.2	+	13	4974	c.3617C>T	c.(3616-3618)CCC>CTC	p.P1206L	TULP4_uc003qrg.2_Intron	NM_020245	NP_064630	Q9NRJ4	TULP4_HUMAN	tubby like protein 4 isoform 1	1206					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)		GTGCAGGCTCCCTGCTCTCCC	0.587													23	59	---	---	---	---	PASS
SYTL3	94120	broad.mit.edu	37	6	159146621	159146621	+	Silent	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:159146621C>A	uc003qrp.2	+	10	1051	c.807C>A	c.(805-807)CTC>CTA	p.L269L	SYTL3_uc011efp.1_Silent_p.L269L|SYTL3_uc003qro.2_Silent_p.L201L|SYTL3_uc003qrq.2_Silent_p.L201L|SYTL3_uc003qrr.2_Silent_p.L269L|SYTL3_uc003qrs.2_Silent_p.L201L|SYTL3_uc011efq.1_Intron	NM_001009991	NP_001009991	Q4VX76	SYTL3_HUMAN	synaptotagmin-like 3	269					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)		AACAGAATCTCCCATCCAGTC	0.383													30	104	---	---	---	---	PASS
FNDC1	84624	broad.mit.edu	37	6	159653084	159653084	+	Silent	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:159653084T>C	uc010kjv.2	+	11	1740	c.1540T>C	c.(1540-1542)TTG>CTG	p.L514L	FNDC1_uc010kjw.1_Silent_p.L399L	NM_032532	NP_115921	Q4ZHG4	FNDC1_HUMAN	fibronectin type III domain containing 1	514						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)		GAACAAAATATTGGCTAATGG	0.557													10	20	---	---	---	---	PASS
FNDC1	84624	broad.mit.edu	37	6	159654381	159654381	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:159654381C>T	uc010kjv.2	+	11	3037	c.2837C>T	c.(2836-2838)GCC>GTC	p.A946V	FNDC1_uc010kjw.1_Missense_Mutation_p.A831V	NM_032532	NP_115921	Q4ZHG4	FNDC1_HUMAN	fibronectin type III domain containing 1	946						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)		TCCTCCCTGGCCTCCAAGGCT	0.617													6	19	---	---	---	---	PASS
FNDC1	84624	broad.mit.edu	37	6	159655137	159655137	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:159655137C>T	uc010kjv.2	+	11	3793	c.3593C>T	c.(3592-3594)TCC>TTC	p.S1198F	FNDC1_uc010kjw.1_Missense_Mutation_p.S1083F	NM_032532	NP_115921	Q4ZHG4	FNDC1_HUMAN	fibronectin type III domain containing 1	1198						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)		CTTCTGTCTTCCTCTGTGCCA	0.627													9	9	---	---	---	---	PASS
IGF2R	3482	broad.mit.edu	37	6	160494846	160494846	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:160494846C>T	uc003qta.2	+	35	5153	c.5005C>T	c.(5005-5007)CGC>TGC	p.R1669C		NM_000876	NP_000867	P11717	MPRI_HUMAN	insulin-like growth factor 2 receptor precursor	1669	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)		CCTTATTCATCGCACTGGTGG	0.418													12	38	---	---	---	---	PASS
LPA	4018	broad.mit.edu	37	6	160952868	160952868	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:160952868C>T	uc003qtl.2	-	40	6136	c.6016G>A	c.(6016-6018)GGA>AGA	p.G2006R		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	4514	Peptidase S1.				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)	GAAGTGACTCCTTGTAAAATG	0.468													20	36	---	---	---	---	PASS
LPA	4018	broad.mit.edu	37	6	161020671	161020671	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:161020671C>A	uc003qtl.2	-	21	3268	c.3148G>T	c.(3148-3150)GGG>TGG	p.G1050W		NM_005577	NP_005568	P08519	APOA_HUMAN	lipoprotein Lp(a) precursor	3558	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)	TCCTGTACCCCGGGGGTTTCC	0.433													5	110	---	---	---	---	PASS
MAP3K4	4216	broad.mit.edu	37	6	161469274	161469274	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:161469274C>T	uc003qtn.2	+						MAP3K4_uc010kkc.1_Intron|MAP3K4_uc003qto.2_Intron|MAP3K4_uc011efz.1_Intron|MAP3K4_uc011ega.1_Intron	NM_005922	NP_005913	Q9Y6R4	M3K4_HUMAN	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)		attttctcatccaggtgtccg	0.085													33	118	---	---	---	---	PASS
MAP3K4	4216	broad.mit.edu	37	6	161470960	161470960	+	Silent	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:161470960T>C	uc003qtn.2	+	3	1798	c.1656T>C	c.(1654-1656)GGT>GGC	p.G552G	MAP3K4_uc010kkc.1_Silent_p.G552G|MAP3K4_uc003qto.2_Silent_p.G552G|MAP3K4_uc011efz.1_RNA|MAP3K4_uc011ega.1_5'UTR	NM_005922	NP_005913	Q9Y6R4	M3K4_HUMAN	mitogen-activated protein kinase kinase kinase 4	552					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)		TAATGGATGGTTCCTTGCAAA	0.378													14	42	---	---	---	---	PASS
PARK2	5071	broad.mit.edu	37	6	161990405	161990405	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:161990405C>T	uc003qtx.3	-	8	1049	c.915G>A	c.(913-915)AGG>AGA	p.R305R	PARK2_uc003qtv.3_Intron|PARK2_uc010kkd.2_Silent_p.R114R|PARK2_uc003qtw.3_Silent_p.R114R|PARK2_uc003qty.3_Silent_p.R277R|PARK2_uc003qtz.3_Silent_p.R156R|PARK2_uc010kke.1_Silent_p.R324R|PARK2_uc011egf.1_5'UTR	NM_004562	NP_004553	O60260	PRKN2_HUMAN	parkin isoform 1	305					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)		CTCCCAGAATCCTGAAGTGAT	0.468													11	32	---	---	---	---	PASS
PARK2	5071	broad.mit.edu	37	6	162683632	162683632	+	Missense_Mutation	SNP	G	A	A	rs148252233		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:162683632G>A	uc003qtx.3	-	3	471	c.337C>T	c.(337-339)CCA>TCA	p.P113S	PARK2_uc003qtv.3_RNA|PARK2_uc010kkd.2_Intron|PARK2_uc003qtw.3_5'UTR|PARK2_uc003qty.3_Missense_Mutation_p.P113S|PARK2_uc003qtz.3_Intron|PARK2_uc010kke.1_Missense_Mutation_p.P113S	NM_004562	NP_004553	O60260	PRKN2_HUMAN	parkin isoform 1	113					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)		GAGTCTCCTGGGAGGACTGAG	0.577													11	30	---	---	---	---	PASS
C6orf118	168090	broad.mit.edu	37	6	165715741	165715741	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:165715741G>A	uc003qum.3	-	2	106	c.70C>T	c.(70-72)CTG>TTG	p.L24L	C6orf118_uc011egi.1_RNA	NM_144980	NP_659417	Q5T5N4	CF118_HUMAN	hypothetical protein LOC168090	24											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)		AGATTACACAGGGTCTTCACG	0.512													12	40	---	---	---	---	PASS
C6orf118	168090	broad.mit.edu	37	6	165723081	165723081	+	5'UTR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:165723081C>T	uc003qum.3	-	1					C6orf118_uc011egi.1_5'Flank	NM_144980	NP_659417	Q5T5N4	CF118_HUMAN	hypothetical protein LOC168090												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)		GCCATCGCTTCCTTCCCTCCA	0.587													7	24	---	---	---	---	PASS
PDE10A	10846	broad.mit.edu	37	6	165801805	165801805	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:165801805C>T	uc003qun.2	-	18	2005	c.1764G>A	c.(1762-1764)CAG>CAA	p.Q588Q	PDE10A_uc011egj.1_RNA|PDE10A_uc011egk.1_Silent_p.Q518Q|PDE10A_uc003quo.2_Silent_p.Q598Q	NM_006661	NP_006652	Q9Y233	PDE10_HUMAN	phosphodiesterase 10A isoform 2	588					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)	TGGACACAGTCTGGGAGAAGT	0.552													19	74	---	---	---	---	PASS
PDE10A	10846	broad.mit.edu	37	6	165842145	165842145	+	Splice_Site	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:165842145C>A	uc003qun.2	-	11	1066	c.825_splice	c.e11+1	p.M275_splice	PDE10A_uc011egj.1_Splice_Site|PDE10A_uc011egk.1_Splice_Site_p.M205_splice|PDE10A_uc003quo.2_Splice_Site_p.M285_splice	NM_006661	NP_006652	Q9Y233	PDE10_HUMAN	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)	AAACAACCTACCATTATGTGT	0.318													7	11	---	---	---	---	PASS
PDE10A	10846	broad.mit.edu	37	6	165846620	165846620	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:165846620G>A	uc003qun.2	-						PDE10A_uc011egj.1_Intron|PDE10A_uc011egk.1_Intron|PDE10A_uc003quo.2_Intron	NM_006661	NP_006652	Q9Y233	PDE10_HUMAN	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)	CGTTCATCCTGAAAAACAAAA	0.348													21	26	---	---	---	---	PASS
PDE10A	10846	broad.mit.edu	37	6	165862430	165862430	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:165862430C>T	uc003qun.2	-	6	593	c.352G>A	c.(352-354)GGA>AGA	p.G118R	PDE10A_uc011egj.1_RNA|PDE10A_uc011egk.1_Missense_Mutation_p.G48R|PDE10A_uc003quo.2_Missense_Mutation_p.G128R	NM_006661	NP_006652	Q9Y233	PDE10_HUMAN	phosphodiesterase 10A isoform 2	118	GAF 1.				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)	TTGCACTCTCCAAGGAAATAC	0.348													8	33	---	---	---	---	PASS
T	6862	broad.mit.edu	37	6	166580159	166580159	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:166580159T>C	uc003quu.1	-	3	885	c.392A>G	c.(391-393)AAC>AGC	p.N131S	T_uc003qut.1_Missense_Mutation_p.N131S|T_uc003quv.1_Missense_Mutation_p.N131S	NM_003181	NP_003172	O15178	BRAC_HUMAN	transcription factor T	131	T-box.				anterior/posterior axis specification, embryo|mesoderm development|primitive streak formation	nucleus	sequence-specific DNA binding transcription factor activity			ovary(1)|pancreas(1)	2		Prostate(117;4.48e-07)|Ovarian(120;1.78e-06)|Breast(66;2.54e-06)|Lung SC(201;0.0225)|Esophageal squamous(34;0.0559)		OV - Ovarian serous cystadenocarcinoma(33;1.09e-113)|GBM - Glioblastoma multiforme(31;1.51e-108)|BRCA - Breast invasive adenocarcinoma(81;8.45e-09)|LUAD - Lung adenocarcinoma(999;0.0407)		GGCCCCGAAGTTGGGCGAGTC	0.652									Chordoma_Familial_Clustering_of				17	24	---	---	---	---	PASS
CCR6	1235	broad.mit.edu	37	6	167550254	167550254	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:167550254C>T	uc003qvl.2	+	13	3012	c.536C>T	c.(535-537)TCC>TTC	p.S179F	CCR6_uc010kkm.2_Missense_Mutation_p.S179F|CCR6_uc003qvn.3_Missense_Mutation_p.S179F|CCR6_uc003qvm.3_Missense_Mutation_p.S179F	NM_031409	NP_113597	P51684	CCR6_HUMAN	chemokine (C-C motif) receptor 6	179	Helical; Name=4; (Potential).				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)		GTCATCATCTCCAGCTCAACT	0.517													14	33	---	---	---	---	PASS
TTLL2	83887	broad.mit.edu	37	6	167754328	167754328	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:167754328G>A	uc003qvs.1	+	3	1028	c.940G>A	c.(940-942)GAA>AAA	p.E314K	TTLL2_uc011egr.1_RNA	NM_031949	NP_114155	Q9BWV7	TTLL2_HUMAN	tubulin tyrosine ligase-like family, member 2	314	TTL.				protein modification process		ATP binding|tubulin-tyrosine ligase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(66;7.8e-06)|Ovarian(120;0.024)		OV - Ovarian serous cystadenocarcinoma(33;2.22e-20)|BRCA - Breast invasive adenocarcinoma(81;6.17e-07)|GBM - Glioblastoma multiforme(31;0.00492)		GAAGATCAAAGAAGTGATTGG	0.433													30	74	---	---	---	---	PASS
MLLT4	4301	broad.mit.edu	37	6	168352699	168352699	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:168352699C>T	uc003qwd.2	+	29	4783	c.4641C>T	c.(4639-4641)GAC>GAT	p.D1547D	MLLT4_uc003qwb.1_Silent_p.D1532D|MLLT4_uc003qwc.1_Silent_p.D1548D|MLLT4_uc003qwg.1_Silent_p.D857D	NM_001040001	NP_001035090	P55196	AFAD_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	1548	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)		GCAAACCGGACCGCAGCGCCG	0.517			T	MLL	AL								12	19	---	---	---	---	PASS
KIF25	3834	broad.mit.edu	37	6	168443317	168443317	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:168443317C>T	uc003qwk.1	+	8	1168	c.906C>T	c.(904-906)GTC>GTT	p.V302V	KIF25_uc003qwl.1_Intron	NM_030615	NP_085118	Q9UIL4	KIF25_HUMAN	kinesin family member 25 isoform 1	302					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)		TGGCAGGCGTCCTGGGGGCTT	0.647													15	28	---	---	---	---	PASS
FRMD1	79981	broad.mit.edu	37	6	168464355	168464355	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:168464355C>T	uc003qwo.3	-	6	795	c.730G>A	c.(730-732)GAG>AAG	p.E244K	FRMD1_uc003qwm.3_Missense_Mutation_p.E15K|FRMD1_uc011egs.1_Missense_Mutation_p.E15K|FRMD1_uc011egt.1_Missense_Mutation_p.E156K|FRMD1_uc003qwn.3_Missense_Mutation_p.E176K	NM_024919	NP_079195	Q8N878	FRMD1_HUMAN	FERM domain containing 1 isoform 1	244	FERM.					cytoskeleton	binding			ovary(1)	1		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)		AGCATGGCCTCCTTGGGGCTC	0.652													7	13	---	---	---	---	PASS
FRMD1	79981	broad.mit.edu	37	6	168464356	168464356	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:168464356C>T	uc003qwo.3	-	6	794	c.729G>A	c.(727-729)AAG>AAA	p.K243K	FRMD1_uc003qwm.3_Silent_p.K14K|FRMD1_uc011egs.1_Silent_p.K14K|FRMD1_uc011egt.1_Silent_p.K155K|FRMD1_uc003qwn.3_Silent_p.K175K	NM_024919	NP_079195	Q8N878	FRMD1_HUMAN	FERM domain containing 1 isoform 1	243	FERM.					cytoskeleton	binding			ovary(1)	1		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)		GCATGGCCTCCTTGGGGCTCA	0.652													7	13	---	---	---	---	PASS
THBS2	7058	broad.mit.edu	37	6	169648703	169648703	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:169648703C>T	uc003qwt.2	-	4	666	c.418G>A	c.(418-420)GAG>AAG	p.E140K		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	140	TSP N-terminal.|Heparin-binding (Potential).				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)		CCGACGTCCTCCAGGGAGACC	0.632													14	29	---	---	---	---	PASS
THBS2	7058	broad.mit.edu	37	6	169648981	169648981	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:169648981C>T	uc003qwt.2	-	4	388	c.140G>A	c.(139-141)GGG>GAG	p.G47E		NM_003247	NP_003238	P35442	TSP2_HUMAN	thrombospondin 2 precursor	47	TSP N-terminal.|Heparin-binding (Potential).				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)		GGGGTCGGGCCCGCGGAACTG	0.582													9	17	---	---	---	---	PASS
C6orf70	55780	broad.mit.edu	37	6	170179304	170179304	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:170179304G>A	uc003qxg.1	+	17	1799	c.1766G>A	c.(1765-1767)AGC>AAC	p.S589N	C6orf70_uc011ehb.1_Missense_Mutation_p.S463N|C6orf70_uc003qxh.1_Missense_Mutation_p.S516N|C6orf70_uc010kky.1_Missense_Mutation_p.S416N|C6orf70_uc003qxi.1_Missense_Mutation_p.S237N	NM_018341	NP_060811	Q5T6L9	CF070_HUMAN	hypothetical protein LOC55780	589	Helical; (Potential).					integral to membrane				ovary(1)	1		Breast(66;5.08e-05)|Ovarian(120;0.208)		OV - Ovarian serous cystadenocarcinoma(33;1.2e-22)|BRCA - Breast invasive adenocarcinoma(81;1.49e-07)|GBM - Glioblastoma multiforme(31;0.00191)		CCTGTGCTCAGCCTGATACTG	0.398													23	21	---	---	---	---	PASS
DLL1	28514	broad.mit.edu	37	6	170592612	170592612	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:170592612C>T	uc003qxm.2	-	9	2225	c.1755G>A	c.(1753-1755)GGG>GGA	p.G585G		NM_005618	NP_005609	O00548	DLL1_HUMAN	delta-like 1 precursor	585	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)		TCTCCGTCTCCCCCCGGCAGG	0.627													16	25	---	---	---	---	PASS
PDGFA	5154	broad.mit.edu	37	7	538204	538204	+	3'UTR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:538204C>T	uc003sir.2	-	7					PDGFA_uc003sis.2_Silent_p.R196R	NM_002607	NP_002598	P04085	PDGFA_HUMAN	platelet-derived growth factor alpha isoform 1						actin cytoskeleton organization|angiogenesis|cell projection assembly|embryo development|hair follicle development|lung alveolus development|negative chemotaxis|negative regulation of phosphatidylinositol biosynthetic process|negative regulation of platelet activation|organ morphogenesis|platelet activation|platelet degranulation|positive regulation of cell division|positive regulation of DNA replication|positive regulation of ERK1 and ERK2 cascade|positive regulation of fibroblast proliferation|positive regulation of MAP kinase activity|positive regulation of mesenchymal cell proliferation|positive regulation of metanephric mesenchymal cell migration by platelet-derived growth factor receptor-beta signaling pathway|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of protein autophosphorylation|positive regulation of protein kinase B signaling cascade|regulation of actin cytoskeleton organization|regulation of branching involved in salivary gland morphogenesis by epithelial-mesenchymal signaling|regulation of peptidyl-tyrosine phosphorylation|regulation of smooth muscle cell migration|skin development	cell surface|endoplasmic reticulum lumen|extracellular space|Golgi membrane|microvillus|platelet alpha granule lumen	collagen binding|eukaryotic cell surface binding|growth factor activity|platelet-derived growth factor binding|platelet-derived growth factor receptor binding|protein heterodimerization activity|protein homodimerization activity				0		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0178)|Epithelial(4;1.1e-17)|OV - Ovarian serous cystadenocarcinoma(56;1.7e-17)|all cancers(6;4.89e-15)		CTCATCCTCACCTCACATCTG	0.522													9	14	---	---	---	---	PASS
SUN1	23353	broad.mit.edu	37	7	892456	892456	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:892456C>T	uc011jvp.1	+	10	999	c.920C>T	c.(919-921)TCC>TTC	p.S307F	GET4_uc003sjj.1_RNA|SUN1_uc003sjf.2_Missense_Mutation_p.S224F|SUN1_uc011jvq.1_Missense_Mutation_p.S204F|SUN1_uc003sjg.2_Missense_Mutation_p.S212F|SUN1_uc011jvr.1_Missense_Mutation_p.S116F|SUN1_uc003sji.2_Missense_Mutation_p.S145F|SUN1_uc003sjk.2_5'UTR	NM_001130965	NP_001124437	O94901	SUN1_HUMAN	unc-84 homolog A isoform a	334	Helical.				cytoskeletal anchoring at nuclear membrane|nuclear matrix anchoring at nuclear membrane	integral to membrane|nuclear inner membrane|SUN-KASH complex	protein binding				0						GCAGGTCTCTCCTTACGGGGC	0.488													34	73	---	---	---	---	PASS
INTS1	26173	broad.mit.edu	37	7	1513866	1513866	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:1513866A>T	uc003skn.2	-	41	5868	c.5767T>A	c.(5767-5769)TTC>ATC	p.F1923I	INTS1_uc003skm.1_Missense_Mutation_p.F60I	NM_001080453	NP_001073922	Q8N201	INT1_HUMAN	integrator complex subunit 1	1923					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)		TCGCTGCGGAACACGTGCGGC	0.687											OREG0017827	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	9	---	---	---	---	PASS
MAD1L1	8379	broad.mit.edu	37	7	2257622	2257622	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:2257622C>T	uc003slh.1	-	7	919	c.653G>A	c.(652-654)AGA>AAA	p.R218K	MAD1L1_uc003sle.1_5'Flank|MAD1L1_uc003slf.1_Missense_Mutation_p.R218K|MAD1L1_uc003slg.1_Missense_Mutation_p.R218K|MAD1L1_uc010ksh.1_Missense_Mutation_p.R218K|MAD1L1_uc003sli.1_Missense_Mutation_p.R126K|MAD1L1_uc010ksi.1_Missense_Mutation_p.R171K|MAD1L1_uc010ksj.2_Missense_Mutation_p.R218K	NM_001013836	NP_001013858	Q9Y6D9	MD1L1_HUMAN	MAD1-like 1 protein	218	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)		GTGGTCTGCTCTTGCTTCTTG	0.517													18	31	---	---	---	---	PASS
FTSJ2	29960	broad.mit.edu	37	7	2275170	2275170	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:2275170C>T	uc003slm.2	-	3	357	c.328G>A	c.(328-330)GGG>AGG	p.G110R	MAD1L1_uc003slh.1_5'Flank|MAD1L1_uc003slf.1_5'Flank|MAD1L1_uc003slg.1_5'Flank|MAD1L1_uc010ksh.1_5'Flank|MAD1L1_uc003sli.1_5'Flank|MAD1L1_uc010ksi.1_5'Flank|MAD1L1_uc010ksj.2_5'Flank|FTSJ2_uc003slk.2_5'UTR|FTSJ2_uc003sll.2_5'UTR|FTSJ2_uc003sln.2_RNA|FTSJ2_uc003slo.2_5'UTR	NM_013393	NP_037525	Q9UI43	RRMJ2_HUMAN	FtsJ homolog 2	110					cell proliferation	mitochondrion|nucleolus	nucleic acid binding|rRNA (uridine-2'-O-)-methyltransferase activity			ovary(1)	1		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0822)|OV - Ovarian serous cystadenocarcinoma(56;2.7e-14)		AGATCTACCCCAAGCACGAAG	0.453													15	36	---	---	---	---	PASS
EIF3B	8662	broad.mit.edu	37	7	2420052	2420052	+	3'UTR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:2420052C>T	uc003slx.2	+	19					EIF3B_uc003sly.2_3'UTR|EIF3B_uc003sma.2_3'UTR|EIF3B_uc003smb.2_RNA	NM_003751	NP_003742	P55884	EIF3B_HUMAN	eukaryotic translation initiation factor 3,						regulation of translational initiation	cytosol|eukaryotic translation initiation factor 3 complex	nucleotide binding|protein complex scaffold|translation initiation factor activity				0		Ovarian(82;0.0253)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0833)|OV - Ovarian serous cystadenocarcinoma(56;7.76e-14)		CCTTTCAGCCCCTGGTGTCTG	0.572													15	19	---	---	---	---	PASS
C7orf27	221927	broad.mit.edu	37	7	2580984	2580984	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:2580984G>A	uc003smi.2	-	9	1311	c.1269C>T	c.(1267-1269)GTC>GTT	p.V423V	C7orf27_uc003smh.3_5'UTR	NM_152743	NP_689956	Q6PJG6	BRAT1_HUMAN	hypothetical protein LOC221927 precursor	423					response to ionizing radiation	nucleus	protein binding				0		Ovarian(82;0.0779)		OV - Ovarian serous cystadenocarcinoma(56;2.91e-14)		GCTGGACCCGGACGCAGCCCG	0.682													4	8	---	---	---	---	PASS
IQCE	23288	broad.mit.edu	37	7	2611823	2611823	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:2611823C>T	uc003smo.3	+						IQCE_uc010ksm.1_Intron|IQCE_uc003sml.1_Intron|IQCE_uc011jvy.1_Intron|IQCE_uc011jvz.1_Intron|IQCE_uc003smk.3_Intron|IQCE_uc003smn.3_Intron	NM_152558	NP_689771	Q6IPM2	IQCE_HUMAN	IQ motif containing E isoform 1												0		Ovarian(82;0.0112)		OV - Ovarian serous cystadenocarcinoma(56;1.23e-13)		ACATTCAAACCAGGAAGTCTG	0.507													25	73	---	---	---	---	PASS
IQCE	23288	broad.mit.edu	37	7	2646835	2646835	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:2646835C>T	uc003smo.3	+	21	2127	c.1943C>T	c.(1942-1944)TCC>TTC	p.S648F	IQCE_uc003sml.1_Missense_Mutation_p.S648F|IQCE_uc011jvy.1_Missense_Mutation_p.S632F|IQCE_uc011jvz.1_Missense_Mutation_p.S583F|IQCE_uc003smk.3_Missense_Mutation_p.S632F|IQCE_uc003smn.3_Missense_Mutation_p.S583F	NM_152558	NP_689771	Q6IPM2	IQCE_HUMAN	IQ motif containing E isoform 1	648											0		Ovarian(82;0.0112)		OV - Ovarian serous cystadenocarcinoma(56;1.23e-13)		GACGCCTCCTCCCCACCCTTC	0.557													17	29	---	---	---	---	PASS
CARD11	84433	broad.mit.edu	37	7	2977615	2977615	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:2977615C>T	uc003smv.2	-	8	1473	c.1069G>A	c.(1069-1071)GAC>AAC	p.D357N		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	357	Potential.				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)		ATTTCACAGTCCTTTCCCAGG	0.562			Mis		DLBCL								21	28	---	---	---	---	PASS
CARD11	84433	broad.mit.edu	37	7	2977616	2977616	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:2977616C>T	uc003smv.2	-	8	1472	c.1068G>A	c.(1066-1068)AAG>AAA	p.K356K		NM_032415	NP_115791	Q9BXL7	CAR11_HUMAN	caspase recruitment domain family, member 11	356	Potential.				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)		TTTCACAGTCCTTTCCCAGGG	0.562			Mis		DLBCL								22	29	---	---	---	---	PASS
FOXK1	221937	broad.mit.edu	37	7	4798934	4798934	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:4798934C>T	uc003snc.1	+						FOXK1_uc003sna.1_Intron	NM_001037165	NP_001032242	P85037	FOXK1_HUMAN	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)		TCTCCGCCCTCCGTGCAGGCT	0.652													4	2	---	---	---	---	PASS
RNF216	54476	broad.mit.edu	37	7	5769095	5769095	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:5769095C>A	uc003soy.1	-	7	1376	c.1186G>T	c.(1186-1188)GAG>TAG	p.E396*	RNF216_uc010ksz.1_Nonsense_Mutation_p.E18*|RNF216_uc010kta.1_Nonsense_Mutation_p.E18*|RNF216_uc011jwj.1_Nonsense_Mutation_p.E18*|RNF216_uc003sox.1_Nonsense_Mutation_p.E453*	NM_207116	NP_996999	Q9NWF9	RN216_HUMAN	ring finger protein 216 isoform b	396					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)		CCTTTGAGCTCGTGCAGGGCC	0.512													26	58	---	---	---	---	PASS
AIMP2	7965	broad.mit.edu	37	7	6057569	6057569	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:6057569C>T	uc003spo.2	+	3	580	c.467C>T	c.(466-468)TCC>TTC	p.S156F		NM_006303	NP_006294	Q13155	AIMP2_HUMAN	aminoacyl tRNA synthetase complex-interacting	156	Interaction with PARK2.				apoptosis|cell differentiation|multicellular organismal development|tRNA aminoacylation for protein translation	cytosol|nucleus	protein binding			ovary(1)	1						CACACGCACTCCTCGGTCAAG	0.547													8	23	---	---	---	---	PASS
CYTH3	9265	broad.mit.edu	37	7	6217551	6217551	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:6217551T>A	uc003spt.2	-	5	375	c.271A>T	c.(271-273)AAT>TAT	p.N91Y		NM_004227	NP_004218	O43739	CYH3_HUMAN	cytohesin 3	91	SEC7.				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						AGCAGGTCATTTTCTATTAGA	0.418													21	45	---	---	---	---	PASS
C7orf70	84792	broad.mit.edu	37	7	6370351	6370351	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:6370351G>A	uc003spu.2	-	2	903	c.435C>T	c.(433-435)TGC>TGT	p.C145C		NM_001037163	NP_001032240	Q7Z4H9	SIPAR_HUMAN	hypothetical protein LOC84792	145						nucleus					0						CTCCTTTGGGGCACTGTCCTC	0.602													10	14	---	---	---	---	PASS
COL28A1	340267	broad.mit.edu	37	7	7484115	7484115	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:7484115C>T	uc003src.1	-	19	1632	c.1515G>A	c.(1513-1515)GAG>GAA	p.E505E	COL28A1_uc011jxe.1_Silent_p.E188E|COL28A1_uc003srd.2_Silent_p.E60E	NM_001037763	NP_001032852	Q2UY09	COSA1_HUMAN	collagen, type XXVIII precursor	505	Collagen-like 4.				cell adhesion	basement membrane|collagen	serine-type endopeptidase inhibitor activity			skin(3)	3		Ovarian(82;0.0789)		UCEC - Uterine corpus endometrioid carcinoma (126;0.228)		TTGAGCCTGGCTCTCCCTGGT	0.448													12	37	---	---	---	---	PASS
NXPH1	30010	broad.mit.edu	37	7	8790773	8790773	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:8790773C>T	uc003srv.2	+	3	1101	c.190C>T	c.(190-192)CGT>TGT	p.R64C	NXPH1_uc011jxh.1_5'UTR	NM_152745	NP_689958	P58417	NXPH1_HUMAN	neurexophilin 1 precursor	64	II.					extracellular region				ovary(1)|central_nervous_system(1)	2		Ovarian(82;0.0628)		UCEC - Uterine corpus endometrioid carcinoma (126;0.101)		ACAGACTTTTCGTGGCAAAGA	0.463													23	59	---	---	---	---	PASS
THSD7A	221981	broad.mit.edu	37	7	11521444	11521444	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:11521444C>T	uc003ssf.3	-	7	2240	c.1988G>A	c.(1987-1989)CGA>CAA	p.R663Q		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	663	TSP type-1 6.|Extracellular (Potential).					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		CAGAATGGATCGTGCTCGTAT	0.517										HNSCC(18;0.044)			15	45	---	---	---	---	PASS
THSD7A	221981	broad.mit.edu	37	7	11630129	11630129	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:11630129C>T	uc003ssf.3	-	4	1663	c.1411G>A	c.(1411-1413)GAA>AAA	p.E471K		NM_015204	NP_056019	Q9UPZ6	THS7A_HUMAN	thrombospondin, type I, domain containing 7A	471	Extracellular (Potential).|TSP type-1 4.					integral to membrane				ovary(3)	3				UCEC - Uterine corpus endometrioid carcinoma (126;0.163)		AGGAGGTTTTCGTTGGCCTGC	0.522										HNSCC(18;0.044)			17	40	---	---	---	---	PASS
MEOX2	4223	broad.mit.edu	37	7	15725862	15725862	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:15725862C>T	uc003stc.2	-	1	447	c.166G>A	c.(166-168)GAA>AAA	p.E56K	MEOX2_uc011jxw.1_Missense_Mutation_p.E56K	NM_005924	NP_005915	P50222	MEOX2_HUMAN	mesenchyme homeobox 2	56					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)		ATGCCCTCTTCGTTGGGGTAT	0.398													4	15	---	---	---	---	PASS
HDAC9	9734	broad.mit.edu	37	7	18684330	18684330	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:18684330G>T	uc003suh.2	+	8	981	c.940G>T	c.(940-942)GAT>TAT	p.D314Y	HDAC9_uc003sue.2_Missense_Mutation_p.D314Y|HDAC9_uc011jyd.1_Missense_Mutation_p.D314Y|HDAC9_uc003sui.2_Missense_Mutation_p.D317Y|HDAC9_uc003suj.2_Missense_Mutation_p.D273Y|HDAC9_uc011jya.1_Missense_Mutation_p.D311Y|HDAC9_uc003sua.1_Missense_Mutation_p.D292Y|HDAC9_uc011jyb.1_Missense_Mutation_p.D270Y|HDAC9_uc003sud.1_Missense_Mutation_p.D314Y|HDAC9_uc011jyc.1_Missense_Mutation_p.D273Y|HDAC9_uc003suf.1_Missense_Mutation_p.D345Y|HDAC9_uc010kud.1_Missense_Mutation_p.D317Y|HDAC9_uc011jye.1_Missense_Mutation_p.D286Y|HDAC9_uc011jyf.1_Missense_Mutation_p.D237Y|HDAC9_uc010kue.1_Missense_Mutation_p.D57Y	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	314	Interaction with MAPK10 (By similarity).				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)	AATTCATGAAGATTCCATGAA	0.403													16	35	---	---	---	---	PASS
HDAC9	9734	broad.mit.edu	37	7	18875092	18875092	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:18875092T>G	uc003suh.2	+	19	2501	c.2460T>G	c.(2458-2460)GAT>GAG	p.D820E	HDAC9_uc003sue.2_Missense_Mutation_p.D820E|HDAC9_uc011jyd.1_Missense_Mutation_p.D820E|HDAC9_uc003sui.2_Missense_Mutation_p.D823E|HDAC9_uc003suj.2_Missense_Mutation_p.D779E|HDAC9_uc003suk.2_Missense_Mutation_p.D68E	NM_058176	NP_478056	Q9UKV0	HDAC9_HUMAN	histone deacetylase 9 isoform 1	820	Histone deacetylase.				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)	CCCTGTAGGATGTTCACCATG	0.448													8	20	---	---	---	---	PASS
ITGB8	3696	broad.mit.edu	37	7	20418838	20418838	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:20418838C>T	uc003suu.2	+	4	1258	c.553C>T	c.(553-555)CGT>TGT	p.R185C	ITGB8_uc011jyh.1_Missense_Mutation_p.R50C|ITGB8_uc003sut.2_Missense_Mutation_p.R185C	NM_002214	NP_002205	P26012	ITB8_HUMAN	integrin, beta 8 precursor	185	VWFA.|Extracellular (Potential).				cell-matrix adhesion|integrin-mediated signaling pathway|placenta blood vessel development	integrin complex	protein binding|receptor activity			skin(3)	3						CCGTGACTTTCGTCTTGGATT	0.363													17	24	---	---	---	---	PASS
ABCB5	340273	broad.mit.edu	37	7	20683155	20683155	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:20683155C>T	uc010kuh.2	+	7	815	c.578C>T	c.(577-579)TCG>TTG	p.S193L		NM_001163941	NP_001157413	Q2M3G0	ABCB5_HUMAN	ATP-binding cassette, sub-family B, member 5	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					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						TCTACTTTTTCGATTGGCCTG	0.423													40	61	---	---	---	---	PASS
DNAH11	8701	broad.mit.edu	37	7	21778373	21778373	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:21778373G>A	uc003svc.2	+	48	7752	c.7721G>A	c.(7720-7722)GGA>GAA	p.G2574E		NM_003777	NP_003768	Q96DT5	DYH11_HUMAN	dynein, axonemal, heavy chain 11	2574	AAA 3 (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						GGTCCTGGAGGAAATAAAAAA	0.383									Kartagener_syndrome				4	6	---	---	---	---	PASS
CPVL	54504	broad.mit.edu	37	7	29132325	29132325	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:29132325G>A	uc003szv.2	-						CPVL_uc003szw.2_Intron|CPVL_uc003szx.2_Intron	NM_031311	NP_112601	Q9H3G5	CPVL_HUMAN	serine carboxypeptidase vitellogenic-like						proteolysis		protein binding|serine-type carboxypeptidase activity			ovary(2)	2						CCACCTGCAGGAGAAATAAAC	0.488													10	11	---	---	---	---	PASS
CHN2	1124	broad.mit.edu	37	7	29438081	29438081	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:29438081G>A	uc003szz.2	+	5	706	c.269G>A	c.(268-270)GGA>GAA	p.G90E	CHN2_uc011jzs.1_Missense_Mutation_p.G165E|CHN2_uc010kva.2_Intron|CHN2_uc010kvb.2_Intron|CHN2_uc010kvc.2_Missense_Mutation_p.G55E|CHN2_uc011jzt.1_Missense_Mutation_p.G103E|CHN2_uc010kvd.2_Intron|CHN2_uc011jzu.1_Missense_Mutation_p.G75E	NM_004067	NP_004058	P52757	CHIO_HUMAN	beta chimerin isoform 2	90	SH2.				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						CGGCAACCAGGATGCTACACG	0.493													14	30	---	---	---	---	PASS
CHN2	1124	broad.mit.edu	37	7	29539651	29539651	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:29539651C>T	uc003szz.2	+	9	1345	c.908C>T	c.(907-909)GCA>GTA	p.A303V	CHN2_uc011jzs.1_Missense_Mutation_p.A378V|CHN2_uc010kva.2_Missense_Mutation_p.A73V|CHN2_uc010kvb.2_Intron|CHN2_uc010kvc.2_Missense_Mutation_p.A268V|CHN2_uc011jzt.1_Missense_Mutation_p.A316V|CHN2_uc010kvd.2_Missense_Mutation_p.A159V|CHN2_uc011jzu.1_Missense_Mutation_p.A288V|CHN2_uc010kvg.2_Missense_Mutation_p.A167V|CHN2_uc010kvh.2_Intron|CHN2_uc010kvi.2_Missense_Mutation_p.A167V|CHN2_uc010kve.2_Missense_Mutation_p.A167V|CHN2_uc003taa.2_Missense_Mutation_p.A167V|CHN2_uc010kvf.2_Intron|CHN2_uc010kvj.2_Missense_Mutation_p.A122V|CHN2_uc010kvk.2_Intron|CHN2_uc010kvl.2_RNA|CHN2_uc010kvm.2_Missense_Mutation_p.A122V|CHN2_uc011jzv.1_Missense_Mutation_p.A96V	NM_004067	NP_004058	P52757	CHIO_HUMAN	beta chimerin isoform 2	303	Rho-GAP.				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						GAAATTGAAGCAAGAGGTTTG	0.373													7	17	---	---	---	---	PASS
WIPF3	644150	broad.mit.edu	37	7	29918688	29918688	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:29918688C>T	uc003taj.1	+	3	287	c.287C>T	c.(286-288)CCC>CTC	p.P96L		NM_001080529	NP_001073998	A6NGB9	WIPF3_HUMAN	WAS/WASL interacting protein family, member 3	96										ovary(1)	1						AGCACACCTCCCACCCTGGGA	0.517													13	7	---	---	---	---	PASS
FAM188B	84182	broad.mit.edu	37	7	30831042	30831042	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:30831042C>T	uc003tbt.2	+	5	1002	c.925C>T	c.(925-927)CCC>TCC	p.P309S	FAM188B_uc010kwe.2_Missense_Mutation_p.P280S	NM_032222	NP_115598	Q4G0A6	F188B_HUMAN	hypothetical protein LOC84182	309											0						GCCGAGGGATCCCTCCGAGGA	0.612													9	12	---	---	---	---	PASS
ADCYAP1R1	117	broad.mit.edu	37	7	31132350	31132350	+	Splice_Site	SNP	G	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:31132350G>C	uc003tca.1	+	13	1269	c.1046_splice	c.e13+1	p.L349_splice	ADCYAP1R1_uc003tcb.1_Splice_Site_p.L328_splice|ADCYAP1R1_uc003tcc.1_Splice_Site_p.L349_splice|ADCYAP1R1_uc003tcd.1_Splice_Site_p.F349_splice|ADCYAP1R1_uc003tce.1_Splice_Site_p.F349_splice|ADCYAP1R1_uc003tcf.1_Splice_Site_p.L51_splice	NM_001118	NP_001109	P41586	PACR_HUMAN	adenylate cyclase activating polypeptide 1						activation of adenylate cyclase activity|cell differentiation|nerve growth factor receptor signaling pathway|spermatogenesis	integral to plasma membrane	vasoactive intestinal polypeptide receptor activity			ovary(1)	1						GCATCTACTTGTAAGTACCAT	0.507													10	9	---	---	---	---	PASS
NEUROD6	63974	broad.mit.edu	37	7	31377977	31377977	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:31377977C>T	uc003tch.2	-	2	1259	c.906G>A	c.(904-906)CAG>CAA	p.Q302Q		NM_022728	NP_073565	Q96NK8	NDF6_HUMAN	neurogenic differentiation 6	302					cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)	2						ACATGGCACCCTGCCCAAGGG	0.478													6	22	---	---	---	---	PASS
NEUROD6	63974	broad.mit.edu	37	7	31378752	31378752	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:31378752C>T	uc003tch.2	-	2	484	c.131G>A	c.(130-132)CGA>CAA	p.R44Q		NM_022728	NP_073565	Q96NK8	NDF6_HUMAN	neurogenic differentiation 6	44					cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(2)	2						GCTCTTTCCTCGAAGGACAAT	0.333													25	58	---	---	---	---	PASS
CCDC129	223075	broad.mit.edu	37	7	31682588	31682588	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:31682588G>A	uc003tcj.1	+	11	2597	c.1604G>A	c.(1603-1605)AGG>AAG	p.R535K	CCDC129_uc011kad.1_Missense_Mutation_p.R545K|CCDC129_uc003tci.1_Missense_Mutation_p.R386K|CCDC129_uc011kae.1_Missense_Mutation_p.R561K|CCDC129_uc003tck.1_Missense_Mutation_p.R443K	NM_194300	NP_919276	Q6ZRS4	CC129_HUMAN	coiled-coil domain containing 129	535											0						GAATGCCCAAGGAAAGACAGC	0.547													33	111	---	---	---	---	PASS
BBS9	27241	broad.mit.edu	37	7	33427609	33427609	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:33427609G>A	uc003tdn.1	+	19	2481	c.1968G>A	c.(1966-1968)CGG>CGA	p.R656R	BBS9_uc003tdo.1_Silent_p.R621R|BBS9_uc003tdp.1_Silent_p.R651R|BBS9_uc003tdq.1_Silent_p.R616R|BBS9_uc010kwn.1_RNA|BBS9_uc003tdr.1_Silent_p.R180R|BBS9_uc003tds.1_Silent_p.R79R|BBS9_uc003tdt.2_RNA	NM_198428	NP_940820	Q3SYG4	PTHB1_HUMAN	parathyroid hormone-responsive B1 isoform 2	656					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)			TGCAGCTACGGATAAATGGTG	0.318									Bardet-Biedl_syndrome				28	93	---	---	---	---	PASS
TXNDC3	51314	broad.mit.edu	37	7	37903946	37903946	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:37903946C>T	uc003tfn.2	+							NM_016616	NP_057700	Q8N427	TXND3_HUMAN	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						AAATTTTTTTCCAGAGGAATT	0.289									Kartagener_syndrome				4	11	---	---	---	---	PASS
EPDR1	54749	broad.mit.edu	37	7	37988542	37988542	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:37988542C>T	uc003tfp.2	+	2	749	c.730C>T	c.(730-732)CCT>TCT	p.P244S	EPDR1_uc003tfq.2_Intron|EPDR1_uc010kxh.2_Missense_Mutation_p.P63S	NM_017549	NP_060019	Q9UM22	EPDR1_HUMAN	ependymin related protein 1 precursor	124					cell-matrix adhesion	extracellular region	calcium ion binding			upper_aerodigestive_tract(1)	1						GCCCTGGGATCCTCTTGACAT	0.488													17	52	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	7	38402568	38402568	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:38402568C>T	uc003tgp.1	+						uc003tgs.1_Missense_Mutation_p.G84E					Homo sapiens cDNA FLJ43658 fis, clone SYNOV4004184.																		ATAATACTTCCCTGGACTGAC	0.468													17	42	---	---	---	---	PASS
AMPH	273	broad.mit.edu	37	7	38475876	38475876	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:38475876G>A	uc003tgu.2	-	12	1199	c.1130C>T	c.(1129-1131)TCT>TTT	p.S377F	AMPH_uc003tgv.2_Missense_Mutation_p.S377F|AMPH_uc003tgt.2_Missense_Mutation_p.S130F	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1	377					endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						TGATACCTGAGACATGGGTGA	0.463													16	24	---	---	---	---	PASS
FAM183B	340286	broad.mit.edu	37	7	38725520	38725520	+	3'UTR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:38725520C>T	uc011kbd.1	-	2						NR_028347				Homo sapiens cDNA FLJ42138 fis, clone TESTI2036684.												0						TTTCTGGGTTCGTAACTCTTT	0.542													20	49	---	---	---	---	PASS
HECW1	23072	broad.mit.edu	37	7	43506110	43506110	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:43506110C>T	uc003tid.1	+	15	3461	c.2856C>T	c.(2854-2856)TCC>TCT	p.S952S	HECW1_uc011kbi.1_Silent_p.S918S	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	952					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						TGCTGCAGTCCCCAGCGGTCA	0.493													15	36	---	---	---	---	PASS
HECW1	23072	broad.mit.edu	37	7	43594213	43594213	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:43594213G>A	uc003tid.1	+	29	5138	c.4533G>A	c.(4531-4533)GTG>GTA	p.V1511V	HECW1_uc011kbi.1_Silent_p.V1477V	NM_015052	NP_055867	Q76N89	HECW1_HUMAN	NEDD4-like ubiquitin-protein ligase 1	1511	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						GGCATCTTGTGATCCGCTGGT	0.388													6	12	---	---	---	---	PASS
URGCP	55665	broad.mit.edu	37	7	43917324	43917324	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:43917324G>A	uc003tiw.2	-	6	1795	c.1738C>T	c.(1738-1740)CCG>TCG	p.P580S	URGCP_uc003tiu.2_Missense_Mutation_p.P537S|URGCP_uc003tiv.2_Missense_Mutation_p.P505S|URGCP_uc003tix.2_Missense_Mutation_p.P571S|URGCP_uc003tiy.2_Missense_Mutation_p.P537S|URGCP_uc003tiz.2_Missense_Mutation_p.P537S|URGCP_uc011kbj.1_Missense_Mutation_p.P537S	NM_001077663	NP_001071131	Q8TCY9	URGCP_HUMAN	up-regulated gene 4 isoform 3	580					cell cycle	centrosome|nucleus	GTP binding			ovary(2)|liver(1)|skin(1)	4						CTCAGTCGCGGCTGGGCCACC	0.657													11	12	---	---	---	---	PASS
MYL7	58498	broad.mit.edu	37	7	44178574	44178574	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:44178574G>A	uc003tkg.2	-	7	486	c.474C>T	c.(472-474)ATC>ATT	p.I158I		NM_021223	NP_067046	Q01449	MLRA_HUMAN	myosin light chain 2a	158	EF-hand 3.				actin filament-based movement|smooth muscle contraction	A band|myosin complex	ATPase activity, coupled|calcium ion binding|microfilament motor activity				0						ACTTGTAGTCGATGTTCCCCG	0.617													20	30	---	---	---	---	PASS
GCK	2645	broad.mit.edu	37	7	44187324	44187324	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:44187324G>A	uc003tkl.2	-	7	1258	c.788C>T	c.(787-789)TCC>TTC	p.S263F	GCK_uc003tkh.1_5'Flank|GCK_uc003tki.1_5'Flank|GCK_uc003tkj.1_Missense_Mutation_p.S262F|GCK_uc003tkk.1_Missense_Mutation_p.S264F	NM_000162	NP_000153	P35557	HXK4_HUMAN	glucokinase isoform 1	263					cellular response to insulin stimulus|cellular response to leptin stimulus|detection of glucose|endocrine pancreas development|glucose homeostasis|glucose transport|glycolysis|negative regulation of gluconeogenesis|positive regulation of glycogen biosynthetic process|positive regulation of insulin secretion|regulation of glucose transport|regulation of glycolysis|transmembrane transport	cytosol|nucleoplasm	ATP binding|glucokinase activity|glucose binding|protein binding			skin(3)|lung(1)	4						CAGCTCGCCGGAGTCCCCGAA	0.632													16	41	---	---	---	---	PASS
DDX56	54606	broad.mit.edu	37	7	44613194	44613194	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:44613194G>A	uc003tlg.2	-	2	853	c.210C>T	c.(208-210)CTC>CTT	p.L70L	DDX56_uc003tle.2_RNA|DDX56_uc003tlf.2_Silent_p.L6L|DDX56_uc003tlh.2_RNA|DDX56_uc010kyg.2_Silent_p.L70L|DDX56_uc010kyh.1_RNA	NM_019082	NP_061955	Q9NY93	DDX56_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 56	70	Helicase ATP-binding.				rRNA processing	nucleolus	ATP binding|ATP-dependent RNA helicase activity|identical protein binding|RNA binding			upper_aerodigestive_tract(1)	1						CCTTCCTATGGAGCAACAGCT	0.612													26	58	---	---	---	---	PASS
OGDH	4967	broad.mit.edu	37	7	44721341	44721341	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:44721341G>T	uc003tln.2	+	10	1338	c.1229G>T	c.(1228-1230)GGG>GTG	p.G410V	OGDH_uc011kbx.1_Missense_Mutation_p.G406V|OGDH_uc011kby.1_Missense_Mutation_p.G260V|OGDH_uc003tlp.2_Missense_Mutation_p.G421V|OGDH_uc011kbz.1_Missense_Mutation_p.G205V|OGDH_uc003tlo.1_Missense_Mutation_p.G243V	NM_002541	NP_002532	Q02218	ODO1_HUMAN	oxoglutarate dehydrogenase isoform 1 precursor	410					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)	CTGTTGCATGGGGATGCTGCA	0.517													5	73	---	---	---	---	PASS
MYO1G	64005	broad.mit.edu	37	7	45004658	45004658	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:45004658G>A	uc003tmh.2	-	18	2556	c.2412C>T	c.(2410-2412)ATC>ATT	p.I804I	MYO1G_uc003tmf.2_Silent_p.I247I|MYO1G_uc003tmg.2_Silent_p.I566I|MYO1G_uc010kym.2_Silent_p.I689I	NM_033054	NP_149043	B0I1T2	MYO1G_HUMAN	myosin IG	804						myosin complex|plasma membrane	actin binding|ATP binding|calmodulin binding|motor activity			breast(2)|ovary(1)|pancreas(1)	4						CTGAAGGGGGGATGTTCTTCA	0.662													15	15	---	---	---	---	PASS
C7orf40	285958	broad.mit.edu	37	7	45025016	45025016	+	RNA	SNP	A	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:45025016A>C	uc003tmk.3	-	1		c.1221T>G			C7orf40_uc003tml.3_Intron|SNORA9_uc003tmm.2_RNA					Homo sapiens cDNA FLJ38860 fis, clone MESAN2011977.												0						TGGATGGAGCAGGGCAAGGCC	0.458													4	21	---	---	---	---	PASS
IGFBP3	3486	broad.mit.edu	37	7	45956837	45956837	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:45956837G>A	uc003tns.2	-	2	737	c.605C>T	c.(604-606)TCC>TTC	p.S202F	IGFBP3_uc003tnq.2_RNA|IGFBP3_uc003tnr.2_Missense_Mutation_p.S208F|IGFBP3_uc003tnt.2_Missense_Mutation_p.S105F	NM_000598	NP_000589	P17936	IBP3_HUMAN	insulin-like growth factor binding protein 3	202	Ser/Thr-rich.				negative regulation of protein phosphorylation|negative regulation of signal transduction|negative regulation of smooth muscle cell migration|negative regulation of smooth muscle cell proliferation|positive regulation of apoptosis|positive regulation of myoblast differentiation|protein phosphorylation|regulation of cell growth	nucleus	insulin-like growth factor I binding|metal ion binding|protein tyrosine phosphatase activator activity			large_intestine(2)|lung(1)	3					Mecasermin(DB01277)	CTTGGACTCGGAGGAGAAGTT	0.493											OREG0018049	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	50	73	---	---	---	---	PASS
C7orf65	401335	broad.mit.edu	37	7	47698586	47698586	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:47698586G>A	uc010kyp.1	+	3	251	c.216G>A	c.(214-216)AGG>AGA	p.R72R		NM_001123065	NP_001116537	Q6ZTY9	CG065_HUMAN	hypothetical protein LOC401335	72											0						GGGGAAGCAGGGAGCTGCTAT	0.507													11	25	---	---	---	---	PASS
PKD1L1	168507	broad.mit.edu	37	7	47835608	47835608	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:47835608C>T	uc003tny.1	-	55	8334	c.8334G>A	c.(8332-8334)GAG>GAA	p.E2778E	C7orf69_uc003tnz.3_Intron|C7orf69_uc003toa.1_Intron	NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	2778	Cytoplasmic (Potential).				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						CCATCTCAGCCTCTTCCAACT	0.398													10	35	---	---	---	---	PASS
PKD1L1	168507	broad.mit.edu	37	7	47937673	47937673	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:47937673G>A	uc003tny.1	-	14	2183	c.2183C>T	c.(2182-2184)TCC>TTC	p.S728F		NM_138295	NP_612152	Q8TDX9	PK1L1_HUMAN	polycystin-1L1	728	Extracellular (Potential).|REJ.				cell-cell adhesion	integral to membrane				ovary(8)|upper_aerodigestive_tract(2)|breast(1)	11						AGCAGGGAGGGAGACAGGGAG	0.552													10	20	---	---	---	---	PASS
ABCA13	154664	broad.mit.edu	37	7	48259101	48259101	+	Silent	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:48259101A>G	uc003toq.2	+	4	463	c.438A>G	c.(436-438)CCA>CCG	p.P146P	ABCA13_uc003top.2_Silent_p.P146P|ABCA13_uc010kyr.2_5'UTR	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	146					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						CCAACACTCCAGGCAAGTAAA	0.428													41	115	---	---	---	---	PASS
ABCA13	154664	broad.mit.edu	37	7	48267014	48267014	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:48267014C>T	uc003toq.2	+	6	649	c.624C>T	c.(622-624)ACC>ACT	p.T208T	ABCA13_uc003top.2_Silent_p.T208T|ABCA13_uc010kyr.2_5'UTR	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	208					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						TTCTCCAGACCATTTTGAAGT	0.333													22	59	---	---	---	---	PASS
ABCA13	154664	broad.mit.edu	37	7	48273711	48273711	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:48273711C>T	uc003toq.2	+	8	885	c.860C>T	c.(859-861)ACG>ATG	p.T287M	ABCA13_uc010kyr.2_Translation_Start_Site	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	287					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						GATCTTCACACGGAACAGATC	0.483													28	66	---	---	---	---	PASS
ABCA13	154664	broad.mit.edu	37	7	48311894	48311894	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:48311894C>T	uc003toq.2	+	17	2656	c.2631C>T	c.(2629-2631)TTC>TTT	p.F877F	ABCA13_uc010kyr.2_Silent_p.F380F	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	877					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						CCCAGTTGTTCCATTCAGATT	0.333													22	67	---	---	---	---	PASS
ABCA13	154664	broad.mit.edu	37	7	48313813	48313813	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:48313813C>T	uc003toq.2	+	17	4575	c.4550C>T	c.(4549-4551)TCC>TTC	p.S1517F	ABCA13_uc010kyr.2_Missense_Mutation_p.S1020F	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	1517					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						GCATCTCAGTCCAATTGGAGA	0.294													8	16	---	---	---	---	PASS
ABCA13	154664	broad.mit.edu	37	7	48313814	48313814	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:48313814C>T	uc003toq.2	+	17	4576	c.4551C>T	c.(4549-4551)TCC>TCT	p.S1517S	ABCA13_uc010kyr.2_Silent_p.S1020S	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	1517					transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						CATCTCAGTCCAATTGGAGAT	0.294													9	16	---	---	---	---	PASS
ABCA13	154664	broad.mit.edu	37	7	48559636	48559636	+	Splice_Site	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:48559636G>A	uc003toq.2	+	53	13823	c.13798_splice	c.e53-1	p.N4600_splice	ABCA13_uc010kys.1_Splice_Site_p.N1675_splice|ABCA13_uc010kyt.1_Splice_Site|ABCA13_uc010kyu.1_Splice_Site_p.N330_splice	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),						transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						TCACTGTGCAGAATTTACAGA	0.338													10	14	---	---	---	---	PASS
ABCA13	154664	broad.mit.edu	37	7	48634393	48634393	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:48634393G>A	uc003toq.2	+	58	14753	c.14728G>A	c.(14728-14730)GTG>ATG	p.V4910M	ABCA13_uc010kys.1_Missense_Mutation_p.V1985M|ABCA13_uc010kyt.1_RNA|ABCA13_uc010kyu.1_Missense_Mutation_p.V640M	NM_152701	NP_689914	Q86UQ4	ABCAD_HUMAN	ATP binding cassette, sub-family A (ABC1),	4910	ABC transporter 2.				transport	integral to membrane	ATP binding|ATPase activity			ovary(5)|central_nervous_system(4)|skin(1)	10						CTGTGCTGCGGTGCTGACCTC	0.463													39	55	---	---	---	---	PASS
DDC	1644	broad.mit.edu	37	7	50605550	50605550	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:50605550C>T	uc003tpf.3	-						DDC_uc010kza.2_Intron|DDC_uc003tpg.3_Intron	NM_000790	NP_000781	P20711	DDC_HUMAN	dopa decarboxylase (aromatic L-amino acid						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)	TCACAGCTCCCACCTTACCTG	0.522													26	42	---	---	---	---	PASS
ZNF479	90827	broad.mit.edu	37	7	57187652	57187652	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:57187652C>T	uc010kzo.2	-	5	1741	c.1470G>A	c.(1468-1470)GAG>GAA	p.E490E		NM_033273	NP_150376	Q96JC4	ZN479_HUMAN	zinc finger protein 479	490					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)|skin(1)	4			GBM - Glioblastoma multiforme(1;9.18e-12)			TGTAGGGTTTCTCTCCAGTAT	0.393													15	36	---	---	---	---	PASS
KCTD7	154881	broad.mit.edu	37	7	66103962	66103962	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:66103962C>T	uc003tve.2	+	4	775	c.613C>T	c.(613-615)CCG>TCG	p.P205S	RABGEF1_uc003tvf.2_Intron|KCTD7_uc003tvd.3_Missense_Mutation_p.P205S	NM_153033	NP_694578	Q96MP8	KCTD7_HUMAN	potassium channel tetramerisation domain	205						voltage-gated potassium channel complex	voltage-gated potassium channel activity			ovary(2)|central_nervous_system(1)	3						CTATGAGTGTCCGCTCCTCAA	0.597													14	25	---	---	---	---	PASS
AUTS2	26053	broad.mit.edu	37	7	70246667	70246667	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:70246667C>T	uc003tvw.3	+	15	2814	c.2071C>T	c.(2071-2073)CCA>TCA	p.P691S	AUTS2_uc003tvx.3_Missense_Mutation_p.P667S|AUTS2_uc011keg.1_Missense_Mutation_p.P143S	NM_015570	NP_056385	Q8WXX7	AUTS2_HUMAN	autism susceptibility candidate 2 isoform 1	691										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)		GAGCCGCCCTCCAGGCCCCAG	0.572													35	61	---	---	---	---	PASS
FZD9	8326	broad.mit.edu	37	7	72849152	72849152	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:72849152T>A	uc003tyb.2	+	1	1044	c.815T>A	c.(814-816)ATG>AAG	p.M272K		NM_003508	NP_003499	O00144	FZD9_HUMAN	frizzled 9 precursor	272	Helical; Name=2; (Potential).				B cell differentiation|brain development|canonical Wnt receptor signaling pathway|embryo development|gonad development|neuroblast proliferation|vasculature development	cell surface|filopodium membrane|integral to membrane|perinuclear region of cytoplasm	G-protein coupled receptor activity|PDZ domain binding|protein heterodimerization activity|protein homodimerization activity|Wnt receptor activity|Wnt-protein binding			central_nervous_system(1)	1		Lung NSC(55;0.0659)|all_lung(88;0.152)				TTCCTCTCCATGTGCTACAAC	0.642													34	57	---	---	---	---	PASS
BAZ1B	9031	broad.mit.edu	37	7	72891522	72891522	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:72891522G>A	uc003tyc.2	-	7	2614	c.2269C>T	c.(2269-2271)CTC>TTC	p.L757F		NM_032408	NP_115784	Q9UIG0	BAZ1B_HUMAN	bromodomain adjacent to zinc finger domain, 1B	757					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)				TATGTCATGAGGATCCGGTGG	0.453													22	27	---	---	---	---	PASS
BAZ1B	9031	broad.mit.edu	37	7	72903596	72903596	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:72903596G>A	uc003tyc.2	-	6	1164	c.819C>T	c.(817-819)GTC>GTT	p.V273V		NM_032408	NP_115784	Q9UIG0	BAZ1B_HUMAN	bromodomain adjacent to zinc finger domain, 1B	273	Mediates the tyrosine-protein kinase activity.				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)				CATCTTCTACGACCCAAGGTG	0.423													26	51	---	---	---	---	PASS
MLXIPL	51085	broad.mit.edu	37	7	73008301	73008301	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:73008301G>A	uc003tyn.1	-	17	2501	c.2453C>T	c.(2452-2454)TCC>TTC	p.S818F	MLXIPL_uc003tyj.1_Missense_Mutation_p.S197F|MLXIPL_uc003tyk.1_Missense_Mutation_p.S797F|MLXIPL_uc003tyl.1_Missense_Mutation_p.S816F|MLXIPL_uc003tym.1_Missense_Mutation_p.S799F|MLXIPL_uc003tyo.1_RNA|MLXIPL_uc003typ.1_3'UTR	NM_032951	NP_116569	Q9NP71	WBS14_HUMAN	Williams Beuren syndrome chromosome region 14	818					anatomical structure morphogenesis|energy reserve metabolic process|glucose mediated signaling pathway|intracellular protein kinase cascade|negative regulation of cell cycle arrest|negative regulation of oxidative phosphorylation|negative regulation of peptidyl-serine phosphorylation|positive regulation of cell proliferation|positive regulation of fatty acid biosynthetic process|positive regulation of glycolysis|positive regulation of transcription from RNA polymerase II promoter|triglyceride homeostasis	cytosol|transcription factor complex	carbohydrate response element binding|protein heterodimerization activity|sequence-specific DNA binding transcription factor activity|transcription factor binding			pancreas(1)	1		Lung NSC(55;0.0659)|all_lung(88;0.152)				CTGGCGTAGGGAGTTCAGGAC	0.612													5	22	---	---	---	---	PASS
WBSCR22	114049	broad.mit.edu	37	7	73108315	73108315	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:73108315C>T	uc003tyt.2	+						WBSCR22_uc010lbi.1_Intron|WBSCR22_uc003tyu.2_Intron|WBSCR22_uc003tyv.2_Intron|WBSCR22_uc003tyw.1_Intron	NM_017528	NP_059998	O43709	WBS22_HUMAN	Williams Beuren syndrome chromosome region 22							nucleus	methyltransferase activity				0		Lung NSC(55;0.0908)|all_lung(88;0.198)				CACTTTGGTTCCTGCAGGGGC	0.577													20	51	---	---	---	---	PASS
CLDN4	1364	broad.mit.edu	37	7	73245659	73245659	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:73245659C>T	uc003tzi.3	+	1	467	c.128C>T	c.(127-129)TCG>TTG	p.S43L	RFC2_uc011kfa.1_Intron|CLDN4_uc003tzh.1_RNA	NM_001305	NP_001296	O14493	CLD4_HUMAN	claudin 4	43	Extracellular (Potential).				calcium-independent cell-cell adhesion	integral to plasma membrane|tight junction	identical protein binding|structural molecule activity|transmembrane receptor activity				0		Lung NSC(55;0.159)				ATTGTCACCTCGCAGACCATC	0.657													7	19	---	---	---	---	PASS
GTF2IRD1	9569	broad.mit.edu	37	7	73973190	73973190	+	Splice_Site	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:73973190G>A	uc003uaq.2	+	21	2546	c.2153_splice	c.e21-1	p.G718_splice	GTF2IRD1_uc010lbq.2_Splice_Site_p.G735_splice|GTF2IRD1_uc003uap.2_Splice_Site_p.G703_splice|GTF2IRD1_uc003uar.1_Splice_Site_p.G703_splice	NM_016328	NP_057412	Q9UHL9	GT2D1_HUMAN	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						CTCGCCCACAGGGGAAGCCTT	0.627													5	14	---	---	---	---	PASS
GTF2IRD1	9569	broad.mit.edu	37	7	73973191	73973191	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:73973191G>A	uc003uaq.2	+	21	2546	c.2153G>A	c.(2152-2154)GGG>GAG	p.G718E	GTF2IRD1_uc010lbq.2_Missense_Mutation_p.G735E|GTF2IRD1_uc003uap.2_Missense_Mutation_p.G703E|GTF2IRD1_uc003uar.1_Missense_Mutation_p.G703E	NM_016328	NP_057412	Q9UHL9	GT2D1_HUMAN	GTF2I repeat domain containing 1 isoform 1	718	GTF2I-like 4.					nucleus	DNA binding|protein binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(4)	4						TCGCCCACAGGGGAAGCCTTG	0.627													5	13	---	---	---	---	PASS
GTF2I	2969	broad.mit.edu	37	7	74105324	74105324	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:74105324C>T	uc003uau.2	+	3	489	c.119C>T	c.(118-120)TCC>TTC	p.S40F	GTF2I_uc003uat.2_Missense_Mutation_p.S40F|GTF2I_uc003uav.2_Missense_Mutation_p.S40F|GTF2I_uc003uaw.2_Missense_Mutation_p.S40F|GTF2I_uc003uay.2_Missense_Mutation_p.S40F|GTF2I_uc003uax.2_Missense_Mutation_p.S40F	NM_032999	NP_127492	P78347	GTF2I_HUMAN	general transcription factor IIi isoform 1	40					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						CTGGCCAAGTCCAAAGCCGAA	0.413													33	80	---	---	---	---	PASS
NCF1	653361	broad.mit.edu	37	7	74197370	74197370	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:74197370G>A	uc003ubb.2	+	6	610	c.540G>A	c.(538-540)GGG>GGA	p.G180G	NCF1_uc010lbs.1_Silent_p.G180G|NCF1_uc011kfh.1_Missense_Mutation_p.G100R	NM_000265	NP_000256	P14598	NCF1_HUMAN	neutrophil cytosolic factor 1	180	SH3 1.				cell communication|cellular defense response|innate immune response|protein targeting to membrane|respiratory burst|superoxide anion generation	cytosol|NADPH oxidase complex|soluble fraction	electron carrier activity|GTP binding|GTPase activity|phosphatidylinositol binding|SH3 domain binding|superoxide-generating NADPH oxidase activity			skin(1)	1						TGTCCACGGGGGACGTGGTGG	0.637													18	25	---	---	---	---	PASS
HIP1	3092	broad.mit.edu	37	7	75211415	75211415	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:75211415G>A	uc003uds.1	-	6	559	c.518C>T	c.(517-519)GCT>GTT	p.A173V	HIP1_uc011kfz.1_Missense_Mutation_p.A50V	NM_005338	NP_005329	O00291	HIP1_HUMAN	huntingtin interacting protein 1	173					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						ACTTTCTCCAGCCTCGTCCAG	0.552			T	PDGFRB	CMML								7	17	---	---	---	---	PASS
CCL24	6369	broad.mit.edu	37	7	75442615	75442615	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:75442615G>A	uc011kga.1	-							NM_002991	NP_002982	O00175	CCL24_HUMAN	small inducible cytokine A24 precursor						cell-cell signaling|chemotaxis|immune response|inflammatory response|positive regulation of actin filament polymerization|positive regulation of cell migration|positive regulation of endothelial cell proliferation|positive regulation of Rac GTPase activity|signal transduction	extracellular space	chemokine activity				0						GCCCATGAAGGATACCTACAT	0.522													12	22	---	---	---	---	PASS
RHBDD2	57414	broad.mit.edu	37	7	75517459	75517459	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:75517459C>T	uc003udw.1	+	4	971	c.887C>T	c.(886-888)CCG>CTG	p.P296L	RHBDD2_uc003udv.1_Missense_Mutation_p.P155L	NM_001040456	NP_001035546	Q6NTF9	RHBD2_HUMAN	rhomboid domain containing 2 isoform a	296						integral to membrane	serine-type endopeptidase activity				0						ACCTTGCCTCCGTACCAGCCT	0.662													35	65	---	---	---	---	PASS
DTX2	113878	broad.mit.edu	37	7	76111997	76111997	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:76111997C>T	uc003uff.3	+	5	997	c.441C>T	c.(439-441)CCC>CCT	p.P147P	DTX2_uc011kgk.1_Silent_p.P56P|DTX2_uc003ufg.3_Silent_p.P147P|DTX2_uc003ufh.3_Silent_p.P147P|DTX2_uc003ufj.3_Silent_p.P147P	NM_020892	NP_065943	Q86UW9	DTX2_HUMAN	deltex 2 isoform a	147	WWE 2.				Notch signaling pathway	cytoplasm|nucleus	protein binding|zinc ion binding			ovary(1)|skin(1)	2						ACTTGGCCCCCCTGGGGTACA	0.627													3	13	---	---	---	---	PASS
DTX2	113878	broad.mit.edu	37	7	76132846	76132846	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:76132846C>T	uc003uff.3	+	10	2049	c.1493C>T	c.(1492-1494)CCC>CTC	p.P498L	DTX2_uc011kgk.1_Missense_Mutation_p.P407L|DTX2_uc003ufg.3_Missense_Mutation_p.P498L|DTX2_uc003ufh.3_Missense_Mutation_p.P498L|DTX2_uc003ufj.3_Missense_Mutation_p.P451L|DTX2_uc003ufk.3_Missense_Mutation_p.P129L|DTX2_uc003ufm.3_Missense_Mutation_p.P211L|DTX2_uc003ufn.3_Missense_Mutation_p.P83L	NM_020892	NP_065943	Q86UW9	DTX2_HUMAN	deltex 2 isoform a	498					Notch signaling pathway	cytoplasm|nucleus	protein binding|zinc ion binding			ovary(1)|skin(1)	2						ATGTCGCTCCCCGGCCACGAG	0.582													5	17	---	---	---	---	PASS
DTX2	113878	broad.mit.edu	37	7	76132847	76132847	+	Silent	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:76132847C>A	uc003uff.3	+	10	2050	c.1494C>A	c.(1492-1494)CCC>CCA	p.P498P	DTX2_uc011kgk.1_Silent_p.P407P|DTX2_uc003ufg.3_Silent_p.P498P|DTX2_uc003ufh.3_Silent_p.P498P|DTX2_uc003ufj.3_Silent_p.P451P|DTX2_uc003ufk.3_Silent_p.P129P|DTX2_uc003ufm.3_Silent_p.P211P|DTX2_uc003ufn.3_Silent_p.P83P	NM_020892	NP_065943	Q86UW9	DTX2_HUMAN	deltex 2 isoform a	498					Notch signaling pathway	cytoplasm|nucleus	protein binding|zinc ion binding			ovary(1)|skin(1)	2						TGTCGCTCCCCGGCCACGAGG	0.577													5	17	---	---	---	---	PASS
CCDC146	57639	broad.mit.edu	37	7	76903065	76903065	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:76903065C>T	uc003uga.2	+	10	1355	c.1228C>T	c.(1228-1230)CAC>TAC	p.H410Y	CCDC146_uc010ldp.2_Intron	NM_020879	NP_065930	Q8IYE0	CC146_HUMAN	coiled-coil domain containing 146	410	Potential.									ovary(1)|central_nervous_system(1)	2		all_cancers(73;0.128)|all_lung(88;0.0986)|all_epithelial(88;0.163)|Myeloproliferative disorder(862;0.205)				GCGAGAGCTTCACAAGGAAGT	0.353													24	90	---	---	---	---	PASS
PHTF2	57157	broad.mit.edu	37	7	77558484	77558484	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:77558484C>T	uc003ugs.3	+	11	1304	c.1178C>T	c.(1177-1179)TCT>TTT	p.S393F	PHTF2_uc003ugp.2_Missense_Mutation_p.S355F|PHTF2_uc003ugq.3_Missense_Mutation_p.S355F|PHTF2_uc010ldv.2_Missense_Mutation_p.S355F|PHTF2_uc003ugt.3_Missense_Mutation_p.S359F|PHTF2_uc003ugu.3_Missense_Mutation_p.S355F|PHTF2_uc003ugv.2_Missense_Mutation_p.S218F|PHTF2_uc010ldw.1_Missense_Mutation_p.S218F	NM_001127357	NP_001120829	Q8N3S3	PHTF2_HUMAN	putative homeodomain transcription factor 2	393					regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum|nucleus	DNA binding			ovary(1)	1						AGACAGGATTCTGAGAGTGCA	0.418													22	31	---	---	---	---	PASS
PHTF2	57157	broad.mit.edu	37	7	77569339	77569339	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:77569339C>T	uc003ugs.3	+						PHTF2_uc003ugp.2_Intron|PHTF2_uc003ugq.3_Intron|PHTF2_uc010ldv.2_Intron|PHTF2_uc003ugt.3_Intron|PHTF2_uc003ugu.3_Intron|PHTF2_uc010ldw.1_Intron	NM_001127357	NP_001120829	Q8N3S3	PHTF2_HUMAN	putative homeodomain transcription factor 2						regulation of transcription, DNA-dependent|transcription, DNA-dependent	endoplasmic reticulum|nucleus	DNA binding			ovary(1)	1						TCCCCTGGCTCCCTCAAGGTG	0.328													14	42	---	---	---	---	PASS
MAGI2	9863	broad.mit.edu	37	7	77764507	77764507	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:77764507G>A	uc003ugx.2	-	17	3116	c.2862C>T	c.(2860-2862)ATC>ATT	p.I954I	MAGI2_uc003ugy.2_Silent_p.I940I|MAGI2_uc010ldx.1_Silent_p.I547I	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	954	PDZ 5.					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)				TGATGCGTCCGATTTTATGGG	0.463													14	41	---	---	---	---	PASS
MAGI2	9863	broad.mit.edu	37	7	78636505	78636505	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:78636505C>T	uc003ugx.2	-	2	573	c.319G>A	c.(319-321)GAC>AAC	p.D107N	MAGI2_uc003ugy.2_Missense_Mutation_p.D107N	NM_012301	NP_036433	Q86UL8	MAGI2_HUMAN	membrane associated guanylate kinase, WW and PDZ	107						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)				TGACGAAGGTCTTTATCAACA	0.383													14	25	---	---	---	---	PASS
HGF	3082	broad.mit.edu	37	7	81335754	81335754	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:81335754G>A	uc003uhl.2	-						HGF_uc003uhm.2_Intron	NM_000601	NP_000592	P14210	HGF_HUMAN	hepatocyte growth factor isoform 1						epithelial to mesenchymal transition|mitosis|platelet activation|platelet degranulation|proteolysis|regulation of branching involved in salivary gland morphogenesis by mesenchymal-epithelial signaling	platelet alpha granule lumen	growth factor activity|serine-type endopeptidase activity			ovary(2)|central_nervous_system(2)	4						CTGTTTTGAAGGAAAAAAATT	0.303													21	40	---	---	---	---	PASS
PCLO	27445	broad.mit.edu	37	7	82390020	82390020	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:82390020C>T	uc003uhx.2	-	24	15512	c.15223G>A	c.(15223-15225)GAT>AAT	p.D5075N		NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	4998	C2 2.				cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GGCTCTCGATCATGTCTGCAT	0.328													13	48	---	---	---	---	PASS
PCLO	27445	broad.mit.edu	37	7	82538253	82538253	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:82538253C>T	uc003uhx.2	-	8	13666	c.13377G>A	c.(13375-13377)CTG>CTA	p.L4459L	PCLO_uc003uhv.2_Silent_p.L4459L	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	4390					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GTTTTCGGTCCAGACCATGTC	0.418													20	53	---	---	---	---	PASS
PCLO	27445	broad.mit.edu	37	7	82546006	82546006	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:82546006T>G	uc003uhx.2	-	7	11585	c.11296A>C	c.(11296-11298)ATA>CTA	p.I3766L	PCLO_uc003uhv.2_Missense_Mutation_p.I3766L|PCLO_uc010lec.2_Missense_Mutation_p.I731L	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3697					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TCTCTGTCTATGTCCTGGAGA	0.458													17	36	---	---	---	---	PASS
PCLO	27445	broad.mit.edu	37	7	82579038	82579038	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:82579038G>A	uc003uhx.2	-	6	11155	c.10866C>T	c.(10864-10866)GTC>GTT	p.V3622V	PCLO_uc003uhv.2_Silent_p.V3622V|PCLO_uc010lec.2_Silent_p.V587V	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3553					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GTGAGTAAAGGACTTTGGGGG	0.478													33	69	---	---	---	---	PASS
PCLO	27445	broad.mit.edu	37	7	82579134	82579134	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:82579134C>T	uc003uhx.2	-	6	11059	c.10770G>A	c.(10768-10770)AAG>AAA	p.K3590K	PCLO_uc003uhv.2_Silent_p.K3590K|PCLO_uc010lec.2_Silent_p.K555K	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	3521					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TTGGGCGTTTCTTGTCTTTGG	0.473													20	43	---	---	---	---	PASS
PCLO	27445	broad.mit.edu	37	7	82581358	82581358	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:82581358C>T	uc003uhx.2	-	5	9200	c.8911G>A	c.(8911-8913)GAT>AAT	p.D2971N	PCLO_uc003uhv.2_Missense_Mutation_p.D2971N|PCLO_uc010lec.2_5'Flank	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	2902					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TAGTGGTCATCCCTATAACCA	0.458													40	112	---	---	---	---	PASS
PCLO	27445	broad.mit.edu	37	7	82581359	82581359	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:82581359C>T	uc003uhx.2	-	5	9199	c.8910G>A	c.(8908-8910)AGG>AGA	p.R2970R	PCLO_uc003uhv.2_Silent_p.R2970R|PCLO_uc010lec.2_5'Flank	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	2901					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						AGTGGTCATCCCTATAACCAA	0.463													40	111	---	---	---	---	PASS
PCLO	27445	broad.mit.edu	37	7	82582984	82582984	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:82582984G>A	uc003uhx.2	-	5	7574	c.7285C>T	c.(7285-7287)CCA>TCA	p.P2429S	PCLO_uc003uhv.2_Missense_Mutation_p.P2429S|PCLO_uc010lec.2_5'Flank	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	2360	Poly-Pro.|Pro-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						GAAGTTGGTggaggaagtggt	0.234													4	4	---	---	---	---	PASS
PCLO	27445	broad.mit.edu	37	7	82584648	82584648	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:82584648G>A	uc003uhx.2	-	5	5910	c.5621C>T	c.(5620-5622)CCG>CTG	p.P1874L	PCLO_uc003uhv.2_Missense_Mutation_p.P1874L	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	1805					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						TATTTTTTCCGGGCTTATTTC	0.388													26	61	---	---	---	---	PASS
PCLO	27445	broad.mit.edu	37	7	82764182	82764182	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:82764182G>A	uc003uhx.2	-	3	2973	c.2684C>T	c.(2683-2685)TCC>TTC	p.S895F	PCLO_uc003uhv.2_Missense_Mutation_p.S895F	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	841	Pro-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						AGGCTTTGGGGACTGTTGAGG	0.542													43	121	---	---	---	---	PASS
PCLO	27445	broad.mit.edu	37	7	82764680	82764680	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:82764680A>G	uc003uhx.2	-	3	2475	c.2186T>C	c.(2185-2187)TTG>TCG	p.L729S	PCLO_uc003uhv.2_Missense_Mutation_p.L729S	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	675	Pro-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						TGGCTTGGACAAAGAATCTGC	0.537													9	30	---	---	---	---	PASS
PCLO	27445	broad.mit.edu	37	7	82784886	82784886	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:82784886C>T	uc003uhx.2	-	2	1360	c.1071G>A	c.(1069-1071)GGG>GGA	p.G357G	PCLO_uc003uhv.2_Silent_p.G357G	NM_033026	NP_149015	Q9Y6V0	PCLO_HUMAN	piccolo isoform 1	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cytoskeleton organization|synaptic vesicle exocytosis	cell junction|cytoskeleton|synaptic vesicle	calcium ion binding|calcium-dependent phospholipid binding|profilin binding|transporter activity			ovary(7)	7						GCTTTGTTGTCCCTGGTGGCT	0.602													9	16	---	---	---	---	PASS
SEMA3A	10371	broad.mit.edu	37	7	83634661	83634661	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:83634661C>T	uc003uhz.2	-	11	1669	c.1354G>A	c.(1354-1356)GGA>AGA	p.G452R		NM_006080	NP_006071	Q14563	SEM3A_HUMAN	semaphorin 3A precursor	452	Sema.				axon guidance	extracellular region|membrane	receptor activity			ovary(2)|breast(1)|kidney(1)	4						TTACCTGTTCCGATAAACATA	0.274													16	34	---	---	---	---	PASS
GRM3	2913	broad.mit.edu	37	7	86415831	86415831	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:86415831C>T	uc003uid.2	+	3	1822	c.723C>T	c.(721-723)ATC>ATT	p.I241I	GRM3_uc010lef.2_Silent_p.I239I|GRM3_uc010leg.2_Silent_p.I113I|GRM3_uc010leh.2_Intron	NM_000840	NP_000831	Q14832	GRM3_HUMAN	glutamate receptor, metabotropic 3 precursor	241	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)	ACATCTGCATCGCTACGGCGG	0.617													7	23	---	---	---	---	PASS
ABCB4	5244	broad.mit.edu	37	7	87053293	87053293	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:87053293C>T	uc003uiv.1	-	17	2216	c.2140G>A	c.(2140-2142)GGA>AGA	p.G714R	ABCB4_uc003uiw.1_Missense_Mutation_p.G714R|ABCB4_uc003uix.1_Missense_Mutation_p.G714R	NM_018849	NP_061337	P21439	MDR3_HUMAN	ATP-binding cassette, subfamily B, member 4	714	Helical; (By similarity).|ABC transmembrane type-1 2.				cellular lipid metabolic process	apical plasma membrane|Golgi membrane|integral to plasma membrane|intercellular canaliculus|membrane fraction	ATP binding|xenobiotic-transporting ATPase activity			ovary(4)|skin(1)|pancreas(1)	6	Esophageal squamous(14;0.0058)|all_lung(186;0.201)|Lung NSC(181;0.203)					CATACTGTTCCCACGACAAAG	0.453													31	68	---	---	---	---	PASS
ABCB1	5243	broad.mit.edu	37	7	87148714	87148714	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:87148714G>A	uc003uiz.1	-	24	3273	c.2855C>T	c.(2854-2856)TCC>TTC	p.S952F	ABCB1_uc011khc.1_Missense_Mutation_p.S888F	NM_000927	NP_000918	P08183	MDR1_HUMAN	ATP-binding cassette, subfamily B, member 1	952	Helical; (Potential).|ABC transmembrane type-1 2.				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)	TCCAGCATAGGAAAAATACAT	0.353													21	37	---	---	---	---	PASS
ADAM22	53616	broad.mit.edu	37	7	87737488	87737488	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:87737488C>T	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	Q9P0K1	ADA22_HUMAN	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)			TTTCTGTTTTCAGGGAGGAGA	0.433													8	10	---	---	---	---	PASS
MGC26647	219557	broad.mit.edu	37	7	88424012	88424012	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:88424012C>T	uc003ujv.2	-	2	427	c.245G>A	c.(244-246)GGA>GAA	p.G82E	ZNF804B_uc011khi.1_Intron	NM_152706	NP_689919	Q8TBZ9	CG062_HUMAN	hypothetical protein LOC219557	82											0	Esophageal squamous(14;0.00802)|all_hematologic(106;0.109)|Lung NSC(181;0.168)|all_lung(186;0.169)		STAD - Stomach adenocarcinoma(171;0.229)			CACTGCTTCTCCTAGGTGATG	0.398													14	30	---	---	---	---	PASS
ZNF804B	219578	broad.mit.edu	37	7	88963589	88963589	+	Silent	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:88963589A>T	uc011khi.1	+	4	1831	c.1293A>T	c.(1291-1293)GCA>GCT	p.A431A		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	431						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)			TAAAAGAAGCATGTACCCATA	0.388										HNSCC(36;0.09)			21	29	---	---	---	---	PASS
ZNF804B	219578	broad.mit.edu	37	7	88965077	88965077	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:88965077C>T	uc011khi.1	+	4	3319	c.2781C>T	c.(2779-2781)ATC>ATT	p.I927I		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	927						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)			CAGCAAAAATCCTTTTAGAAA	0.413										HNSCC(36;0.09)			75	147	---	---	---	---	PASS
ZNF804B	219578	broad.mit.edu	37	7	88965831	88965831	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:88965831C>T	uc011khi.1	+	4	4073	c.3535C>T	c.(3535-3537)CGA>TGA	p.R1179*		NM_181646	NP_857597	A4D1E1	Z804B_HUMAN	zinc finger protein 804B	1179						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)			AAAGCATCTTCGAGTTTTGCC	0.483										HNSCC(36;0.09)			18	38	---	---	---	---	PASS
C7orf63	79846	broad.mit.edu	37	7	89909084	89909084	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:89909084G>A	uc010lep.2	+	12	1500	c.1249G>A	c.(1249-1251)GAA>AAA	p.E417K	C7orf63_uc003ukf.2_RNA|C7orf63_uc003ukg.2_Missense_Mutation_p.E92K|C7orf63_uc011khj.1_Missense_Mutation_p.E399K|C7orf63_uc011khk.1_5'UTR	NM_001039706	NP_001034795	A5D8W1	CG063_HUMAN	hypothetical protein LOC79846 isoform 1	417							binding			ovary(1)	1						AGCACAGCATGAAGAATTACA	0.388											OREG0003793	type=REGULATORY REGION|Gene=AK024715|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	27	75	---	---	---	---	PASS
AKAP9	10142	broad.mit.edu	37	7	91674509	91674509	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:91674509C>T	uc003ulg.2	+	21	5575	c.5350C>T	c.(5350-5352)CAT>TAT	p.H1784Y	AKAP9_uc003ulf.2_Missense_Mutation_p.H1784Y|AKAP9_uc003uli.2_Missense_Mutation_p.H1409Y	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	A-kinase anchor protein 9 isoform 2	1796					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)			GTCATGTGTCCATGAGGAACA	0.408			T	BRAF	papillary thyroid								18	34	---	---	---	---	PASS
AKAP9	10142	broad.mit.edu	37	7	91687575	91687575	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:91687575C>T	uc003ulg.2	+						AKAP9_uc003ulf.2_Intron|AKAP9_uc003uli.2_Intron	NM_005751	NP_005742	Q99996	AKAP9_HUMAN	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)			TTGAATCTCGCGTGCCTTTAC	0.368			T	BRAF	papillary thyroid								13	37	---	---	---	---	PASS
PEX1	5189	broad.mit.edu	37	7	92146607	92146607	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:92146607G>A	uc003uly.2	-	5	1318	c.1222C>T	c.(1222-1224)CAT>TAT	p.H408Y	PEX1_uc011khr.1_Missense_Mutation_p.H200Y|PEX1_uc010ley.2_Missense_Mutation_p.H408Y|PEX1_uc011khs.1_Intron|PEX1_uc011kht.1_RNA	NM_000466	NP_000457	O43933	PEX1_HUMAN	peroxin1	408					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)			TTCCCAAGATGGAGAACTTCT	0.328													22	51	---	---	---	---	PASS
CALCR	799	broad.mit.edu	37	7	93098044	93098044	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:93098044C>T	uc003umv.1	-	7	819	c.558G>A	c.(556-558)GGG>GGA	p.G186G	CALCR_uc003ums.1_RNA|CALCR_uc003umt.1_RNA|CALCR_uc003umu.1_Silent_p.G168G|CALCR_uc003umw.2_Silent_p.G168G	NM_001742	NP_001733	P30988	CALCR_HUMAN	calcitonin receptor isoform 2 precursor	168	Helical; Name=1; (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|elevation of cytosolic calcium ion concentration|positive regulation of adenylate cyclase activity|response to glucocorticoid stimulus	integral to plasma membrane	calcitonin binding|calcitonin binding|calcitonin receptor activity|calcitonin receptor activity|protein binding			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)	ACACGAAAATCCCCAGGGAAA	0.388													16	36	---	---	---	---	PASS
COL1A2	1278	broad.mit.edu	37	7	94035589	94035589	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:94035589G>A	uc003ung.1	+	12	1039	c.568G>A	c.(568-570)GGA>AGA	p.G190R	COL1A2_uc011kib.1_Intron|COL1A2_uc010lfh.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	190			Missing (in OI4).		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)	TGGATTGAAGGGACAGCCCGG	0.363										HNSCC(75;0.22)			8	23	---	---	---	---	PASS
COL1A2	1278	broad.mit.edu	37	7	94052291	94052291	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:94052291C>T	uc003ung.1	+	40	2897	c.2426C>T	c.(2425-2427)CCC>CTC	p.P809L	COL1A2_uc011kib.1_Intron|COL1A2_uc010lfi.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	809			Missing (in OI2A).|Missing (in OI2A).		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)	CCTCCTGGTCCCCCTGGTCCT	0.537										HNSCC(75;0.22)			40	85	---	---	---	---	PASS
COL1A2	1278	broad.mit.edu	37	7	94054481	94054481	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:94054481C>T	uc003ung.1	+	42	3197	c.2726C>T	c.(2725-2727)CCT>CTT	p.P909L	COL1A2_uc011kib.1_Intron	NM_000089	NP_000080	P08123	CO1A2_HUMAN	alpha 2 type I collagen precursor	909					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)	CGTGGTCCTCCTGGTGCTGTG	0.517										HNSCC(75;0.22)			12	25	---	---	---	---	PASS
CASD1	64921	broad.mit.edu	37	7	94180720	94180720	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:94180720G>A	uc003uni.3	+	15	2113	c.1886G>A	c.(1885-1887)GGA>GAA	p.G629E	CASD1_uc003unj.3_Missense_Mutation_p.G629E	NM_022900	NP_075051	Q96PB1	CASD1_HUMAN	CAS1 domain containing 1 precursor	629						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)			CTTTCTGAAGGAAAGGGTGAA	0.303													4	11	---	---	---	---	PASS
SGCE	8910	broad.mit.edu	37	7	94232748	94232748	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:94232748C>T	uc003unl.2	-	6	790	c.679G>A	c.(679-681)GGT>AGT	p.G227S	SGCE_uc003unk.2_Missense_Mutation_p.G59S|SGCE_uc003unm.2_Missense_Mutation_p.G227S|SGCE_uc003unn.2_Missense_Mutation_p.G227S|SGCE_uc011kic.1_Missense_Mutation_p.G186S|SGCE_uc011kid.1_Missense_Mutation_p.G263S	NM_003919	NP_003910	O43556	SGCE_HUMAN	sarcoglycan, epsilon isoform 2	227	Extracellular (Potential).				cell-matrix adhesion|muscle organ development	cytoplasm|cytoskeleton|integral to plasma membrane|sarcoglycan complex|sarcolemma	calcium ion binding			ovary(1)	1	all_cancers(62;8.26e-10)|all_epithelial(64;5.59e-09)|Lung NSC(181;0.188)|all_lung(186;0.215)		STAD - Stomach adenocarcinoma(171;0.0031)			ACATCTGCACCAACCATGACA	0.348													8	23	---	---	---	---	PASS
PEG10	23089	broad.mit.edu	37	7	94293051	94293051	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:94293051C>T	uc011kie.1	+	2	628	c.411C>T	c.(409-411)CTC>CTT	p.L137L		NM_001040152	NP_001035242	Q86TG7	PEG10_HUMAN	paternally expressed 10 isoform RF1	61					apoptosis|cell differentiation|negative regulation of transforming growth factor beta receptor signaling pathway	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_cancers(62;8.26e-10)|all_epithelial(64;5.59e-09)|Lung NSC(181;0.188)|all_lung(186;0.215)		STAD - Stomach adenocarcinoma(171;0.0031)			ACATCGAGCTCCGCGGTGCTG	0.592													5	9	---	---	---	---	PASS
PEG10	23089	broad.mit.edu	37	7	94293052	94293052	+	Missense_Mutation	SNP	C	T	T	rs147863226	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:94293052C>T	uc011kie.1	+	2	629	c.412C>T	c.(412-414)CGC>TGC	p.R138C		NM_001040152	NP_001035242	Q86TG7	PEG10_HUMAN	paternally expressed 10 isoform RF1	62					apoptosis|cell differentiation|negative regulation of transforming growth factor beta receptor signaling pathway	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_cancers(62;8.26e-10)|all_epithelial(64;5.59e-09)|Lung NSC(181;0.188)|all_lung(186;0.215)		STAD - Stomach adenocarcinoma(171;0.0031)			CATCGAGCTCCGCGGTGCTGC	0.597													5	9	---	---	---	---	PASS
PEG10	23089	broad.mit.edu	37	7	94293196	94293196	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:94293196G>A	uc011kie.1	+	2	773	c.556G>A	c.(556-558)GAT>AAT	p.D186N		NM_001040152	NP_001035242	Q86TG7	PEG10_HUMAN	paternally expressed 10 isoform RF1	110	Necessary for interaction with ALK1.				apoptosis|cell differentiation|negative regulation of transforming growth factor beta receptor signaling pathway	cytoplasm|nucleus	DNA binding|protein binding|zinc ion binding			central_nervous_system(1)	1	all_cancers(62;8.26e-10)|all_epithelial(64;5.59e-09)|Lung NSC(181;0.188)|all_lung(186;0.215)		STAD - Stomach adenocarcinoma(171;0.0031)			GAGCACCAGGGATTTCTCAGT	0.567													10	38	---	---	---	---	PASS
PPP1R9A	55607	broad.mit.edu	37	7	94876775	94876775	+	Intron	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:94876775C>A	uc003unp.2	+						PPP1R9A_uc010lfj.2_Intron|PPP1R9A_uc011kif.1_Intron|PPP1R9A_uc003unq.2_Intron|PPP1R9A_uc011kig.1_Intron	NM_017650	NP_060120	Q9ULJ8	NEB1_HUMAN	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)			TCTTTCTTTTCAATTTTCAGT	0.323										HNSCC(28;0.073)			18	47	---	---	---	---	PASS
PON1	5444	broad.mit.edu	37	7	94937442	94937442	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:94937442G>A	uc003uns.2	-	6	676	c.579C>T	c.(577-579)TCC>TCT	p.S193S	PON1_uc011kih.1_Silent_p.S193S	NM_000446	NP_000437	P27169	PON1_HUMAN	paraoxonase 1 precursor	193					aromatic compound catabolic process|carboxylic acid catabolic process|organophosphate catabolic process|phosphatidylcholine metabolic process|positive regulation of binding|positive regulation of cholesterol efflux|positive regulation of transporter activity|response to external stimulus	spherical high-density lipoprotein particle	aryldialkylphosphatase activity|arylesterase activity|calcium ion binding|phospholipid binding|protein homodimerization activity			pancreas(1)	1	all_cancers(62;1.04e-10)|all_epithelial(64;3.67e-09)|Lung NSC(181;0.239)		STAD - Stomach adenocarcinoma(171;0.0031)		Atorvastatin(DB01076)|Cefazolin(DB01327)	ACATCTCCCAGGATTGTAAGT	0.398													22	54	---	---	---	---	PASS
ASB4	51666	broad.mit.edu	37	7	95167003	95167003	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:95167003C>T	uc011kij.1	+	5	1213	c.1213C>T	c.(1213-1215)CCT>TCT	p.P405S		NM_016116	NP_057200	Q9Y574	ASB4_HUMAN	ankyrin repeat and SOCS box-containing protein 4	405	SOCS box.				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)			TAGAGCAATTCCTTTGCTTTC	0.413													21	64	---	---	---	---	PASS
DYNC1I1	1780	broad.mit.edu	37	7	95606924	95606924	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:95606924G>A	uc003uoc.3	+						DYNC1I1_uc003uod.3_Intron|DYNC1I1_uc003uob.2_Intron|DYNC1I1_uc003uoe.3_Intron|DYNC1I1_uc010lfl.2_Intron	NM_004411	NP_004402	O14576	DC1I1_HUMAN	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)			GTATGATATGGAAAATAAACT	0.338													6	18	---	---	---	---	PASS
DYNC1I1	1780	broad.mit.edu	37	7	95616462	95616462	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:95616462C>T	uc003uoc.3	+	9	1166	c.889C>T	c.(889-891)CTC>TTC	p.L297F	DYNC1I1_uc003uod.3_Missense_Mutation_p.L280F|DYNC1I1_uc003uob.2_Missense_Mutation_p.L260F|DYNC1I1_uc003uoe.3_Missense_Mutation_p.L277F|DYNC1I1_uc010lfl.2_Missense_Mutation_p.L286F	NM_004411	NP_004402	O14576	DC1I1_HUMAN	dynein, cytoplasmic 1, intermediate chain 1	297	WD 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)			GGACTGGTCCCTCCAGGTAAG	0.438													63	119	---	---	---	---	PASS
TAC1	6863	broad.mit.edu	37	7	97363037	97363037	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:97363037G>A	uc003uop.3	+	3	372	c.126G>A	c.(124-126)GAG>GAA	p.E42E	TAC1_uc003uoq.3_Silent_p.E42E|TAC1_uc003uor.3_Silent_p.E42E|TAC1_uc003uos.3_Silent_p.E42E	NM_003182	NP_003173	P20366	TKN1_HUMAN	tachykinin 1 isoform beta precursor	42					detection of abiotic stimulus|elevation of cytosolic calcium ion concentration|insemination|neuropeptide signaling pathway|synaptic transmission|tachykinin receptor signaling pathway	extracellular space					0	all_cancers(62;3.95e-09)|all_epithelial(64;1.1e-09)|Esophageal squamous(72;0.00448)|Lung NSC(181;0.0358)|all_lung(186;0.0384)				Bacitracin(DB00626)	TCTCCCAGGAGGAACTGCCGG	0.607													4	29	---	---	---	---	PASS
ASNS	440	broad.mit.edu	37	7	97481714	97481714	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:97481714C>T	uc003uot.3	-	13	2049	c.1543G>A	c.(1543-1545)GGA>AGA	p.G515R	ASNS_uc011kin.1_Missense_Mutation_p.G432R|ASNS_uc003uou.3_Missense_Mutation_p.G515R|ASNS_uc003uov.3_Missense_Mutation_p.G515R|ASNS_uc011kio.1_Missense_Mutation_p.G494R|ASNS_uc003uow.3_Missense_Mutation_p.G494R|ASNS_uc003uox.3_Missense_Mutation_p.G432R	NM_133436	NP_597680	P08243	ASNS_HUMAN	asparagine synthetase	515	Asparagine synthetase.				cellular response to glucose starvation|glutamine metabolic process|negative regulation of apoptosis|positive regulation of mitotic cell cycle	cytosol|soluble fraction	asparagine synthase (glutamine-hydrolyzing) activity|ATP binding			ovary(1)	1	all_cancers(62;6.64e-09)|all_epithelial(64;1.58e-09)|Esophageal squamous(72;0.00448)|Lung NSC(181;0.0342)|all_lung(186;0.0369)				Adenosine triphosphate(DB00171)|L-Asparagine(DB00174)|L-Aspartic Acid(DB00128)|L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	TAGTAATATCCTTCTTTGGTT	0.453													27	67	---	---	---	---	PASS
ASNS	440	broad.mit.edu	37	7	97482657	97482657	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:97482657G>A	uc003uot.3	-	11	1786	c.1280C>T	c.(1279-1281)TCC>TTC	p.S427F	ASNS_uc011kin.1_Missense_Mutation_p.S344F|ASNS_uc003uou.3_Missense_Mutation_p.S427F|ASNS_uc003uov.3_Missense_Mutation_p.S427F|ASNS_uc011kio.1_Missense_Mutation_p.S406F|ASNS_uc003uow.3_Missense_Mutation_p.S406F|ASNS_uc003uox.3_Missense_Mutation_p.S344F	NM_133436	NP_597680	P08243	ASNS_HUMAN	asparagine synthetase	427	Asparagine synthetase.				cellular response to glucose starvation|glutamine metabolic process|negative regulation of apoptosis|positive regulation of mitotic cell cycle	cytosol|soluble fraction	asparagine synthase (glutamine-hydrolyzing) activity|ATP binding			ovary(1)	1	all_cancers(62;6.64e-09)|all_epithelial(64;1.58e-09)|Esophageal squamous(72;0.00448)|Lung NSC(181;0.0342)|all_lung(186;0.0369)				Adenosine triphosphate(DB00171)|L-Asparagine(DB00174)|L-Aspartic Acid(DB00128)|L-Glutamic Acid(DB00142)|L-Glutamine(DB00130)	CAAGTAATAGGAAGAAAATCG	0.343													18	40	---	---	---	---	PASS
TECPR1	25851	broad.mit.edu	37	7	97854118	97854118	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:97854118G>A	uc003upg.2	-	19	2890	c.2685C>T	c.(2683-2685)TTC>TTT	p.F895F		NM_015395	NP_056210	Q7Z6L1	TCPR1_HUMAN	tectonin beta-propeller repeat containing 1	895						integral to membrane	protein binding			pancreas(1)	1						CTTACGCAGGGAAGTCGCTGG	0.632													3	3	---	---	---	---	PASS
PTCD1	26024	broad.mit.edu	37	7	99026789	99026789	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:99026789G>A	uc003uqh.2	-	5	983	c.852C>T	c.(850-852)ACC>ACT	p.T284T	PTCD1_uc011kiw.1_Silent_p.T333T	NM_015545	NP_056360	O75127	PTCD1_HUMAN	pentatricopeptide repeat domain 1	284	PPR 5.									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)			GGAAACTGAAGGTCTCCTCTG	0.522													16	54	---	---	---	---	PASS
PTCD1	26024	broad.mit.edu	37	7	99026790	99026790	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:99026790G>A	uc003uqh.2	-	5	982	c.851C>T	c.(850-852)ACC>ATC	p.T284I	PTCD1_uc011kiw.1_Missense_Mutation_p.T333I	NM_015545	NP_056360	O75127	PTCD1_HUMAN	pentatricopeptide repeat domain 1	284	PPR 5.									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)			GAAACTGAAGGTCTCCTCTGT	0.517													16	53	---	---	---	---	PASS
CYP3A7	1551	broad.mit.edu	37	7	99313520	99313520	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:99313520C>T	uc003uru.2	-	7	636	c.531G>A	c.(529-531)GGG>GGA	p.G177G	ZNF498_uc003urn.2_Intron|CYP3A5_uc003urs.2_Intron|CYP3A5_uc010lgg.2_Intron	NM_000765	NP_000756	P24462	CP3A7_HUMAN	cytochrome P450, family 3, subfamily A,	177					xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)	1	Lung NSC(181;0.0144)|Esophageal squamous(72;0.0166)|all_lung(186;0.0228)					TGCTGTAGGCCCCAAAGACGC	0.458													21	56	---	---	---	---	PASS
ZCWPW1	55063	broad.mit.edu	37	7	99999549	99999549	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:99999549C>T	uc003uut.2	-	17	1835	c.1587G>A	c.(1585-1587)AGG>AGA	p.R529R	ZCWPW1_uc011kjq.1_Silent_p.R409R|ZCWPW1_uc003uur.2_Intron|ZCWPW1_uc003uus.2_Intron|ZCWPW1_uc011kjr.1_Intron|ZCWPW1_uc011kjp.1_RNA	NM_017984	NP_060454	Q9H0M4	ZCPW1_HUMAN	zinc finger, CW type with PWWP domain 1	529							zinc ion binding				0	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					GGCCTTCTTTCCTTCCCATTC	0.542													31	67	---	---	---	---	PASS
MEPCE	56257	broad.mit.edu	37	7	100028584	100028584	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100028584C>T	uc003uuw.2	+	1	1056	c.943C>T	c.(943-945)CCC>TCC	p.P315S	ZCWPW1_uc003uut.2_5'Flank|ZCWPW1_uc011kjr.1_5'Flank|ZCWPW1_uc003uuu.1_5'Flank|ZCWPW1_uc011kjt.1_5'Flank|ZCWPW1_uc011kju.1_5'Flank|MEPCE_uc003uuv.2_5'UTR	NM_019606	NP_062552	Q7L2J0	MEPCE_HUMAN	bin3, bicoid-interacting 3	315							methyltransferase activity			upper_aerodigestive_tract(1)	1	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					TGCCCCCCAACCCTATGAACT	0.657													19	55	---	---	---	---	PASS
MEPCE	56257	broad.mit.edu	37	7	100028585	100028585	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100028585C>T	uc003uuw.2	+	1	1057	c.944C>T	c.(943-945)CCC>CTC	p.P315L	ZCWPW1_uc003uut.2_5'Flank|ZCWPW1_uc011kjr.1_5'Flank|ZCWPW1_uc003uuu.1_5'Flank|ZCWPW1_uc011kjt.1_5'Flank|ZCWPW1_uc011kju.1_5'Flank|MEPCE_uc003uuv.2_5'UTR	NM_019606	NP_062552	Q7L2J0	MEPCE_HUMAN	bin3, bicoid-interacting 3	315							methyltransferase activity			upper_aerodigestive_tract(1)	1	Lung NSC(181;0.0181)|all_lung(186;0.0284)|Esophageal squamous(72;0.0439)					GCCCCCCAACCCTATGAACTC	0.657													20	56	---	---	---	---	PASS
ZAN	7455	broad.mit.edu	37	7	100350724	100350724	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100350724C>T	uc003uwj.2	+	14	3161	c.2996C>T	c.(2995-2997)GCC>GTC	p.A999V	ZAN_uc003uwk.2_Missense_Mutation_p.A999V|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	999	66 X heptapeptide repeats (approximate) (mucin-like domain).|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)			AAGCTCACAGCCCTGAGGCCA	0.572													38	49	---	---	---	---	PASS
ZAN	7455	broad.mit.edu	37	7	100377269	100377269	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100377269C>T	uc003uwj.2	+	36	6684	c.6519C>T	c.(6517-6519)TTC>TTT	p.F2173F	ZAN_uc003uwk.2_Silent_p.F2173F|ZAN_uc003uwl.2_RNA|ZAN_uc010lhh.2_RNA|ZAN_uc010lhi.2_RNA|ZAN_uc011kke.1_Intron	NM_003386	NP_003377	Q9Y493	ZAN_HUMAN	zonadhesin isoform 3	2173	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)			TCTGTGAGTTCGGAGGTCTCT	0.652													3	6	---	---	---	---	PASS
EPHB4	2050	broad.mit.edu	37	7	100405041	100405041	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100405041G>A	uc003uwn.1	-	13	2771	c.2280C>T	c.(2278-2280)GGC>GGT	p.G760G	EPHB4_uc003uwm.1_Silent_p.G667G|EPHB4_uc010lhj.1_Silent_p.G760G	NM_004444	NP_004435	P54760	EPHB4_HUMAN	EPH receptor B4 precursor	760	Cytoplasmic (Potential).|Protein kinase.				cell proliferation|organ morphogenesis|regulation of angiogenesis	cell surface|integral to plasma membrane	ATP binding|ephrin receptor activity			lung(4)|stomach(3)|skin(3)|central_nervous_system(2)|ovary(2)|breast(1)	15	Lung NSC(181;0.041)|all_lung(186;0.0581)					ATCGGGAAAGGCCAAAGTCAG	0.562													21	51	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	7	100549600	100549600	+	5'Flank	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100549600C>T	uc003uxk.1	+						uc003uxl.1_5'Flank					Homo sapiens MUC3B mRNA for intestinal mucin, partial cds.																		ACTTGGTGTCCCCCAGCTCGC	0.567													29	83	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	7	100552779	100552779	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100552779G>A	uc003uxk.1	+						uc003uxl.1_Intron					Homo sapiens MUC3B mRNA for intestinal mucin, partial cds.																		CTGCAGGTTGGACCTTCTGCC	0.527													65	244	---	---	---	---	PASS
MUC17	140453	broad.mit.edu	37	7	100678116	100678116	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100678116C>T	uc003uxp.1	+	3	3472	c.3419C>T	c.(3418-3420)TCA>TTA	p.S1140L	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	1140	Extracellular (Potential).|59 X approximate tandem repeats.|17.|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)					GAAGCCAGTTCATCTCCTACA	0.547													92	214	---	---	---	---	PASS
MUC17	140453	broad.mit.edu	37	7	100681856	100681856	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:100681856A>G	uc003uxp.1	+	3	7212	c.7159A>G	c.(7159-7161)ATG>GTG	p.M2387V	MUC17_uc010lho.1_RNA	NM_001040105	NP_001035194	Q685J3	MUC17_HUMAN	mucin 17 precursor	2387	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)					CGATACTAGCATGCCAACCTC	0.493													75	210	---	---	---	---	PASS
CUX1	1523	broad.mit.edu	37	7	101840495	101840495	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:101840495C>T	uc003uyx.3	+	15	1842	c.1804C>T	c.(1804-1806)CGT>TGT	p.R602C	CUX1_uc003uys.3_Missense_Mutation_p.R613C|CUX1_uc003uyt.2_Intron|CUX1_uc011kkn.1_Intron|CUX1_uc003uyw.2_Intron|CUX1_uc003uyv.2_Intron|CUX1_uc003uyu.2_Intron	NM_181552	NP_853530	P39880	CUX1_HUMAN	cut-like homeobox 1 isoform a	602	CUT 1.				negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity	p.R602R(1)		ovary(5)|pancreas(1)|central_nervous_system(1)|skin(1)	8						ACTGACTGTTCGTGGCAAGGA	0.512													21	35	---	---	---	---	PASS
ORAI2	80228	broad.mit.edu	37	7	102087217	102087217	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:102087217C>T	uc010lhz.1	+	4	718	c.483C>T	c.(481-483)TTC>TTT	p.F161F	ORAI2_uc003uzj.2_Silent_p.F161F|ORAI2_uc003uzk.2_Silent_p.F161F|ORAI2_uc011kks.1_Silent_p.F84F	NM_001126340	NP_001119812	Q96SN7	ORAI2_HUMAN	ORAI calcium release-activated calcium modulator	161	Helical; (Potential).					integral to membrane	protein binding			ovary(1)|kidney(1)	2						TCCTACTCTTCCTGGCCGAGG	0.662													41	73	---	---	---	---	PASS
LRWD1	222229	broad.mit.edu	37	7	102106347	102106347	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:102106347C>T	uc003uzn.2	+	2	302	c.164C>T	c.(163-165)TCT>TTT	p.S55F	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	55	LRR 2.				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						CTTGACCTGTCTAACAACCAC	0.627													6	27	---	---	---	---	PASS
PSMC2	5701	broad.mit.edu	37	7	103008052	103008052	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:103008052C>T	uc003vbs.2	+	10	1107	c.1037C>T	c.(1036-1038)CCC>CTC	p.P346L	SLC26A5_uc003vbt.1_Intron|SLC26A5_uc003vbu.1_Intron|SLC26A5_uc003vbv.1_Intron|PSMC2_uc011klo.1_Missense_Mutation_p.P209L	NM_002803	NP_002794	P35998	PRS7_HUMAN	proteasome 26S ATPase subunit 2	346					anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|G1/S transition of mitotic cell cycle|interspecies interaction between organisms|M/G1 transition of mitotic cell cycle|mRNA metabolic process|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|regulation of apoptosis|regulation of cellular amino acid metabolic process|S phase of mitotic cell cycle|viral reproduction	mitochondrion|nucleus|proteasome complex	ATP binding|ATPase activity|protein binding				0						TTTAGCTTGCCCGATCTAGAG	0.358													5	21	---	---	---	---	PASS
RELN	5649	broad.mit.edu	37	7	103123325	103123325	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:103123325G>A	uc003vca.2	-	63	10435	c.10275C>T	c.(10273-10275)GTC>GTT	p.V3425V	RELN_uc010liz.2_Silent_p.V3425V	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	3425					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)		CTCACAGGACGACCTCCACAT	0.473													17	59	---	---	---	---	PASS
RELN	5649	broad.mit.edu	37	7	103230142	103230142	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:103230142C>T	uc003vca.2	-	28	4206	c.4046G>A	c.(4045-4047)GGA>GAA	p.G1349E	RELN_uc010liz.2_Missense_Mutation_p.G1349E	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	1349					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)		TCTGGAGTTTCCTTCGCATCC	0.478													35	75	---	---	---	---	PASS
RELN	5649	broad.mit.edu	37	7	103252186	103252186	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:103252186C>T	uc003vca.2	-	21	2927	c.2767G>A	c.(2767-2769)GGA>AGA	p.G923R	RELN_uc010liz.2_Missense_Mutation_p.G923R	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	923					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)		TAGGATGCTCCTATCTGCATT	0.423													16	35	---	---	---	---	PASS
RELN	5649	broad.mit.edu	37	7	103322649	103322649	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:103322649G>A	uc003vca.2	-	11	1363	c.1203C>T	c.(1201-1203)TTC>TTT	p.F401F	RELN_uc010liz.2_Silent_p.F401F	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	401					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)		TGGCAAAATTGAACTCGCTGC	0.448													22	53	---	---	---	---	PASS
RELN	5649	broad.mit.edu	37	7	103338452	103338452	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:103338452C>T	uc003vca.2	-	10	1151	c.991G>A	c.(991-993)GAA>AAA	p.E331K	RELN_uc010liz.2_Missense_Mutation_p.E331K	NM_005045	NP_005036	P78509	RELN_HUMAN	reelin isoform a	331					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	p.E331K(1)		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)		CGAAGATTTTCCTGCTTCCAC	0.448													36	68	---	---	---	---	PASS
HBP1	26959	broad.mit.edu	37	7	106836297	106836297	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:106836297G>A	uc003vdy.2	+	9	1272	c.1086G>A	c.(1084-1086)ATG>ATA	p.M362I	HBP1_uc011klv.1_Missense_Mutation_p.M372I|HBP1_uc003vdz.2_Missense_Mutation_p.M362I|HBP1_uc003vea.2_Missense_Mutation_p.M362I|HBP1_uc003veb.1_Missense_Mutation_p.M362I	NM_012257	NP_036389	O60381	HBP1_HUMAN	HMG-box transcription factor 1	362					cell cycle arrest|regulation of transcription, DNA-dependent|transcription, DNA-dependent|Wnt receptor signaling pathway	nucleus	DNA binding			skin(1)	1						TCACACCTATGGATTCTTCTG	0.328													11	20	---	---	---	---	PASS
SLC26A4	5172	broad.mit.edu	37	7	107329538	107329538	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:107329538G>A	uc003vep.2	+	9	1266	c.1042G>A	c.(1042-1044)GAG>AAG	p.E348K	SLC26A4_uc011kmb.1_5'Flank|SLC26A4_uc011kmc.1_5'Flank	NM_000441	NP_000432	O43511	S26A4_HUMAN	pendrin	348	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						CTTGTTCTCGGAGATGCTGGC	0.443									Pendred_syndrome				29	49	---	---	---	---	PASS
LAMB4	22798	broad.mit.edu	37	7	107667369	107667369	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:107667369G>A	uc010ljo.1	-						LAMB4_uc003vey.2_Intron|LAMB4_uc010ljp.1_Intron	NM_007356	NP_031382	A4D0S4	LAMB4_HUMAN	laminin, beta 4 precursor						cell adhesion	basement membrane				ovary(4)|breast(2)|large_intestine(1)|skin(1)	8						GCCTCAAAAGGAAAAGAGAAA	0.423													9	33	---	---	---	---	PASS
NRCAM	4897	broad.mit.edu	37	7	107834765	107834765	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:107834765G>C	uc003vfb.2	-	16	2042	c.1571C>G	c.(1570-1572)ACG>AGG	p.T524R	NRCAM_uc003vfc.2_Missense_Mutation_p.T518R|NRCAM_uc011kmk.1_Missense_Mutation_p.T519R|NRCAM_uc003vfd.2_Missense_Mutation_p.T500R|NRCAM_uc003vfe.2_Missense_Mutation_p.T500R	NM_001037132	NP_001032209	Q92823	NRCAM_HUMAN	neuronal cell adhesion molecule isoform A	524	Ig-like 5.|Extracellular (Potential).				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						TGCAACACACGTATAAGTTCC	0.358													24	40	---	---	---	---	PASS
LRRN3	54674	broad.mit.edu	37	7	110764288	110764288	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:110764288C>T	uc003vft.3	+	4	2506	c.1460C>T	c.(1459-1461)ACT>ATT	p.T487I	IMMP2L_uc003vfq.1_Intron|IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron|LRRN3_uc003vfu.3_Missense_Mutation_p.T487I|LRRN3_uc003vfs.3_Missense_Mutation_p.T487I	NM_001099660	NP_001093130	Q9H3W5	LRRN3_HUMAN	leucine rich repeat neuronal 3 precursor	487	Extracellular (Potential).|Ig-like C2-type.					integral to membrane				skin(3)|ovary(2)|pancreas(2)|central_nervous_system(1)	8				UCEC - Uterine corpus endometrioid carcinoma (4;0.245)|LUSC - Lung squamous cell carcinoma(290;0.0715)|Lung(3;0.0864)|STAD - Stomach adenocarcinoma(3;0.125)		AATGGCGTAACTCCCAAAGAA	0.403													9	56	---	---	---	---	PASS
LRRN3	54674	broad.mit.edu	37	7	110764817	110764817	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:110764817G>A	uc003vft.3	+	4	3035	c.1989G>A	c.(1987-1989)AGG>AGA	p.R663R	IMMP2L_uc003vfq.1_Intron|IMMP2L_uc010ljr.1_Intron|IMMP2L_uc003vfr.2_Intron|LRRN3_uc003vfu.3_Silent_p.R663R|LRRN3_uc003vfs.3_Silent_p.R663R	NM_001099660	NP_001093130	Q9H3W5	LRRN3_HUMAN	leucine rich repeat neuronal 3 precursor	663	Cytoplasmic (Potential).					integral to membrane				skin(3)|ovary(2)|pancreas(2)|central_nervous_system(1)	8				UCEC - Uterine corpus endometrioid carcinoma (4;0.245)|LUSC - Lung squamous cell carcinoma(290;0.0715)|Lung(3;0.0864)|STAD - Stomach adenocarcinoma(3;0.125)		GCTATGTGAGGAATTACTTAC	0.428													25	48	---	---	---	---	PASS
DOCK4	9732	broad.mit.edu	37	7	111555875	111555875	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:111555875G>A	uc003vfx.2	-	13	1420	c.1151C>T	c.(1150-1152)TCC>TTC	p.S384F	DOCK4_uc003vfy.2_Missense_Mutation_p.S384F|DOCK4_uc003vga.1_5'UTR	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	dedicator of cytokinesis 4	384					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)				CCTTGTTATGGATACTCCATG	0.373													7	13	---	---	---	---	PASS
PPP1R3A	5506	broad.mit.edu	37	7	113518376	113518376	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:113518376G>A	uc010ljy.1	-	4	2802	c.2771C>T	c.(2770-2772)TCA>TTA	p.S924L		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	924					glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						AGTTGACACTGAAATTTCAGT	0.378													21	65	---	---	---	---	PASS
PPP1R3A	5506	broad.mit.edu	37	7	113558613	113558613	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:113558613G>A	uc010ljy.1	-	1	470	c.439C>T	c.(439-441)CGA>TGA	p.R147*		NM_002711	NP_002702	Q16821	PPR3A_HUMAN	protein phosphatase 1, regulatory (inhibitor)	147	CBM21.				glycogen metabolic process	integral to membrane				lung(9)|ovary(9)|pancreas(7)|skin(6)|breast(2)|prostate(1)	34						TTCAAAACTCGAATAATACCC	0.338													14	34	---	---	---	---	PASS
WNT2	7472	broad.mit.edu	37	7	116918396	116918396	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:116918396C>A	uc003viz.2	-	5	1196	c.896G>T	c.(895-897)CGG>CTG	p.R299L	WNT2_uc003vja.2_Missense_Mutation_p.R203L	NM_003391	NP_003382	P09544	WNT2_HUMAN	wingless-type MMTV integration site family	299			R -> W.		atrial cardiac muscle tissue morphogenesis|canonical Wnt receptor signaling pathway|cardiac epithelial to mesenchymal transition|cellular response to retinoic acid|cellular response to transforming growth factor beta stimulus|dorsal/ventral axis specification|iris morphogenesis|labyrinthine layer blood vessel development|lens development in camera-type eye|lung induction|mammary gland epithelium development|neuron differentiation|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cardiac muscle cell proliferation|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of fibroblast proliferation|positive regulation of mesenchymal cell proliferation|positive regulation of sequence-specific DNA binding transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|Wnt receptor signaling pathway, calcium modulating pathway	cytoplasm|extracellular space|proteinaceous extracellular matrix	cytokine activity|frizzled binding|frizzled-2 binding|signal transducer activity	p.N295_D302del(1)		breast(2)|central_nervous_system(2)|ovary(1)|lung(1)|skin(1)	7	all_epithelial(6;2.24e-06)|Lung NSC(10;0.000936)|all_lung(10;0.00109)		STAD - Stomach adenocarcinoma(10;0.000512)	LUSC - Lung squamous cell carcinoma(290;0.133)		GTCCATGCCCCGGGAAGTCAG	0.572													3	24	---	---	---	---	PASS
CFTR	1080	broad.mit.edu	37	7	117170987	117170987	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:117170987G>A	uc003vjd.2	+	4	440	c.308G>A	c.(307-309)GGA>GAA	p.G103E	CFTR_uc011knq.1_5'UTR	NM_000492	NP_000483	P13569	CFTR_HUMAN	cystic fibrosis transmembrane conductance	103	Helical; Name=1; (Potential).|ABC transmembrane type-1 1.				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)	CTCTTACTGGGAAGAATCATA	0.398									Cystic_Fibrosis				15	26	---	---	---	---	PASS
CTTNBP2	83992	broad.mit.edu	37	7	117431685	117431685	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:117431685G>T	uc003vjf.2	-	4	1657	c.1565C>A	c.(1564-1566)CCT>CAT	p.P522H		NM_033427	NP_219499	Q8WZ74	CTTB2_HUMAN	cortactin binding protein 2	522	Pro-rich.									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)		ACCAACTGGAGGGTGGGTGCC	0.542													26	56	---	---	---	---	PASS
AASS	10157	broad.mit.edu	37	7	121755143	121755143	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:121755143G>T	uc003vka.2	-	8	1124	c.1028C>A	c.(1027-1029)CCT>CAT	p.P343H	AASS_uc011knu.1_RNA|AASS_uc011knv.1_RNA|AASS_uc003vkb.2_Missense_Mutation_p.P343H|AASS_uc011knw.1_Intron	NM_005763	NP_005754	Q9UDR5	AASS_HUMAN	aminoadipate-semialdehyde synthase precursor	343	Lysine-ketoglutarate reductase.				protein tetramerization	mitochondrial matrix	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity|saccharopine dehydrogenase (NADP+, L-lysine-forming) activity			upper_aerodigestive_tract(1)|ovary(1)	2					L-Glutamic Acid(DB00142)|NADH(DB00157)	TGGTAATGCAGGGCAGCCTTC	0.488													5	45	---	---	---	---	PASS
AASS	10157	broad.mit.edu	37	7	121758651	121758651	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:121758651C>T	uc003vka.2	-	4	602	c.506G>A	c.(505-507)AGG>AAG	p.R169K	AASS_uc011knu.1_RNA|AASS_uc011knv.1_RNA|AASS_uc003vkb.2_Missense_Mutation_p.R169K|AASS_uc011knw.1_Intron	NM_005763	NP_005754	Q9UDR5	AASS_HUMAN	aminoadipate-semialdehyde synthase precursor	169	Lysine-ketoglutarate reductase.				protein tetramerization	mitochondrial matrix	binding|saccharopine dehydrogenase (NAD+, L-glutamate-forming) activity|saccharopine dehydrogenase (NADP+, L-lysine-forming) activity			upper_aerodigestive_tract(1)|ovary(1)	2					L-Glutamic Acid(DB00142)|NADH(DB00157)	AGCAAGGAGCCTTAAACCCAT	0.338													8	21	---	---	---	---	PASS
CADPS2	93664	broad.mit.edu	37	7	122130223	122130223	+	Silent	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:122130223G>T	uc010lkp.2	-	11	1927	c.1764C>A	c.(1762-1764)GCC>GCA	p.A588A	CADPS2_uc003vkg.3_Silent_p.A288A|CADPS2_uc010lkq.2_Silent_p.A588A	NM_017954	NP_060424	Q86UW7	CAPS2_HUMAN	Ca2+-dependent activator protein for secretion 2	588	PH.				exocytosis|protein transport	cell junction|cytoplasmic vesicle membrane|synapse	lipid binding|metal ion binding			ovary(1)|central_nervous_system(1)	2						ATTGACCTGTGGCCCTATACA	0.393													31	65	---	---	---	---	PASS
GRM8	2918	broad.mit.edu	37	7	126173069	126173069	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:126173069G>A	uc003vlr.2	-	8	2678	c.2367C>T	c.(2365-2367)ACC>ACT	p.T789T	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Silent_p.T789T|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	789	Helical; Name=6; (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)	TGATGCAGGTGGTATACATGG	0.408										HNSCC(24;0.065)			12	32	---	---	---	---	PASS
GRM8	2918	broad.mit.edu	37	7	126173393	126173393	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:126173393C>T	uc003vlr.2	-	8	2354	c.2043G>A	c.(2041-2043)AAG>AAA	p.K681K	GRM8_uc003vls.2_RNA|GRM8_uc011kof.1_RNA|GRM8_uc003vlt.2_Silent_p.K681K|GRM8_uc010lkz.1_RNA	NM_000845	NP_000836	O00222	GRM8_HUMAN	glutamate receptor, metabotropic 8 isoform a	681	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)	TGACAGATTTCTTCCCCTGCT	0.512										HNSCC(24;0.065)			22	32	---	---	---	---	PASS
ARF5	381	broad.mit.edu	37	7	127230149	127230149	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:127230149C>T	uc003vmb.1	+	4	324	c.288C>T	c.(286-288)GAC>GAT	p.D96D	ARF5_uc010llb.1_3'UTR|FSCN3_uc003vmc.1_5'Flank	NM_001662	NP_001653	P84085	ARF5_HUMAN	ADP-ribosylation factor 5	96					protein transport|small GTPase mediated signal transduction|vesicle-mediated transport	Golgi apparatus|perinuclear region of cytoplasm	GTP binding|GTPase activity|protein binding			ovary(1)	1						ACAGTAATGACCGGGAGCGGG	0.547													27	47	---	---	---	---	PASS
FSCN3	29999	broad.mit.edu	37	7	127235514	127235514	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:127235514C>T	uc003vmd.1	+	2	517	c.298C>T	c.(298-300)CAC>TAC	p.H100Y	FSCN3_uc003vmc.1_Missense_Mutation_p.H55Y|FSCN3_uc011kog.1_RNA|FSCN3_uc011koh.1_5'UTR|FSCN3_uc010llc.1_Missense_Mutation_p.H100Y	NM_020369	NP_065102	Q9NQT6	FSCN3_HUMAN	fascin 3	100						actin cytoskeleton|cytoplasm	actin filament binding|protein binding, bridging			ovary(1)	1						ACTGCGTTTCCACCGGAACAG	0.552													15	27	---	---	---	---	PASS
FSCN3	29999	broad.mit.edu	37	7	127235654	127235654	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:127235654G>A	uc003vmd.1	+	2	657	c.438G>A	c.(436-438)GTG>GTA	p.V146V	FSCN3_uc003vmc.1_Silent_p.V101V|FSCN3_uc011kog.1_RNA|FSCN3_uc011koh.1_Silent_p.V12V|FSCN3_uc010llc.1_Silent_p.V146V	NM_020369	NP_065102	Q9NQT6	FSCN3_HUMAN	fascin 3	146						actin cytoskeleton|cytoplasm	actin filament binding|protein binding, bridging			ovary(1)	1						ATGTCCACGTGATCCTCTACA	0.607													18	36	---	---	---	---	PASS
FAM71F1	84691	broad.mit.edu	37	7	128369984	128369984	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:128369984C>T	uc003vno.1	+	6	935	c.882C>T	c.(880-882)ATC>ATT	p.I294I	FAM71F1_uc003vnm.1_RNA|FAM71F1_uc003vnn.1_Silent_p.I193I|FAM71F1_uc003vnp.1_Silent_p.I292I	NM_032599	NP_115988	Q96KD3	F71F1_HUMAN	testes development-related NYD-SP18	294										skin(1)	1						AAGACAGCATCCCTTGCACCT	0.512													22	44	---	---	---	---	PASS
FLNC	2318	broad.mit.edu	37	7	128478326	128478326	+	Silent	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:128478326C>A	uc003vnz.3	+	7	1262	c.1053C>A	c.(1051-1053)ACC>ACA	p.T351T	FLNC_uc003voa.3_Silent_p.T351T	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	351	Filamin 1.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						CCTAGGTGACCGTGCTCTTTG	0.627													5	89	---	---	---	---	PASS
FLNC	2318	broad.mit.edu	37	7	128478391	128478391	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:128478391G>A	uc003vnz.3	+	7	1327	c.1118G>A	c.(1117-1119)GGA>GAA	p.G373E	FLNC_uc003voa.3_Missense_Mutation_p.G373E	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	373	Filamin 2.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						ATGGCCCTGGGAGATGCCAAC	0.572													16	56	---	---	---	---	PASS
FLNC	2318	broad.mit.edu	37	7	128484142	128484142	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:128484142C>T	uc003vnz.3	+	20	3223	c.3014C>T	c.(3013-3015)TCG>TTG	p.S1005L	FLNC_uc003voa.3_Missense_Mutation_p.S1005L	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	1005	Filamin 8.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						CGGATGACTTCGCCCTCTCGC	0.662													11	14	---	---	---	---	PASS
FLNC	2318	broad.mit.edu	37	7	128490444	128490444	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:128490444G>A	uc003vnz.3	+	32	5514	c.5305G>A	c.(5305-5307)GAG>AAG	p.E1769K	FLNC_uc003voa.3_Missense_Mutation_p.E1736K	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	1769	Filamin 16.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						GCAGGCCACAGAGGAGCCAGT	0.582													28	45	---	---	---	---	PASS
FLNC	2318	broad.mit.edu	37	7	128497374	128497374	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:128497374C>T	uc003vnz.3	+	46	7973	c.7764C>T	c.(7762-7764)TTC>TTT	p.F2588F	FLNC_uc003voa.3_Silent_p.F2555F	NM_001458	NP_001449	Q14315	FLNC_HUMAN	gamma filamin isoform a	2588	Interaction with INPPL1.|Filamin 23.				cell junction assembly	cytoskeleton|cytosol|plasma membrane|sarcomere	actin binding			breast(5)|large_intestine(3)|ovary(2)|central_nervous_system(1)|skin(1)	12						GCAGCCCCTTCAAGGCCAAGG	0.637													8	23	---	---	---	---	PASS
TSPAN33	340348	broad.mit.edu	37	7	128802733	128802733	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:128802733C>T	uc003vop.1	+	4	577	c.348C>T	c.(346-348)TTC>TTT	p.F116F		NM_178562	NP_848657	Q86UF1	TSN33_HUMAN	tetraspanin 33	116	Helical; (Potential).					integral to membrane				ovary(1)	1						TCCTGGGCTTCGTCTTCTCAG	0.577													48	60	---	---	---	---	PASS
FAM40B	57464	broad.mit.edu	37	7	129096369	129096369	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:129096369C>T	uc011koy.1	+	9	964	c.924C>T	c.(922-924)ATC>ATT	p.I308I	FAM40B_uc003vow.2_Silent_p.I308I|FAM40B_uc011koz.1_5'Flank	NM_020704	NP_065755	Q9ULQ0	FA40B_HUMAN	hypothetical protein LOC57464 isoform a	308											0						AAGACAGTATCCAGGTGGTGA	0.582													26	44	---	---	---	---	PASS
TMEM209	84928	broad.mit.edu	37	7	129813502	129813502	+	Silent	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:129813502G>T	uc003vpn.2	-	13	1650	c.1527C>A	c.(1525-1527)ATC>ATA	p.I509I	TMEM209_uc010lmc.1_Silent_p.I467I	NM_032842	NP_116231	Q96SK2	TM209_HUMAN	transmembrane protein 209	509						integral to membrane				ovary(2)|large_intestine(1)	3	Melanoma(18;0.0435)					GACGCTGGTAGATGAGCTCAT	0.358													23	58	---	---	---	---	PASS
CPA1	1357	broad.mit.edu	37	7	130021505	130021505	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:130021505C>T	uc003vpx.2	+	3	254	c.182C>T	c.(181-183)TCC>TTC	p.S61F	CPA1_uc011kpf.1_Intron|CPA1_uc003vpw.2_Missense_Mutation_p.S61F	NM_001868	NP_001859	P15085	CBPA1_HUMAN	carboxypeptidase A1 precursor	61					proteolysis	extracellular space	metallocarboxypeptidase activity|zinc ion binding			ovary(1)	1	Melanoma(18;0.0435)					CACCCTGGCTCCCCCATCGAC	0.667													9	22	---	---	---	---	PASS
PLXNA4	91584	broad.mit.edu	37	7	132193132	132193132	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:132193132G>A	uc003vra.3	-	2	550	c.321C>T	c.(319-321)CCC>CCT	p.P107P	PLXNA4_uc003vrc.2_Silent_p.P107P|PLXNA4_uc003vrb.2_Silent_p.P107P	NM_020911	NP_065962	Q9HCM2	PLXA4_HUMAN	plexin A4 isoform 1	107	Extracellular (Potential).|Sema.					integral to membrane|intracellular|plasma membrane				ovary(1)	1						TGGTGGTCAGGGGCTCATTGC	0.567													15	32	---	---	---	---	PASS
EXOC4	60412	broad.mit.edu	37	7	133002030	133002030	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:133002030C>T	uc003vrk.2	+						EXOC4_uc011kpo.1_Intron|EXOC4_uc003vri.2_Intron|EXOC4_uc003vrj.2_Intron	NM_021807	NP_068579	Q96A65	EXOC4_HUMAN	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)				GCTTCTTTTCCCGTTCAGCTC	0.443													28	48	---	---	---	---	PASS
AKR1B15	441282	broad.mit.edu	37	7	134260593	134260593	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:134260593C>T	uc011kpr.1	+	8	956	c.657C>T	c.(655-657)CTC>CTT	p.L219L	AKR1B15_uc011kps.1_Silent_p.L191L	NM_001080538	NP_001074007	C9JRZ8	AK1BF_HUMAN	aldo-keto reductase family 1, member B15	219							oxidoreductase activity			ovary(1)	1						ACCCATACCTCACGCAGGAGA	0.532													10	51	---	---	---	---	PASS
MIR490	574443	broad.mit.edu	37	7	136587929	136587929	+	RNA	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:136587929T>C	hsa-mir-490|MI0003125	+			c.16T>C			CHRM2_uc003vtf.1_Intron|CHRM2_uc003vtg.1_Intron|CHRM2_uc003vtj.1_Intron|CHRM2_uc003vtk.1_Intron|CHRM2_uc003vtl.1_Intron|CHRM2_uc003vtm.1_Intron|CHRM2_uc003vti.1_Intron|CHRM2_uc003vto.1_Intron|CHRM2_uc003vtn.1_Intron|uc003vtp.1_Intron																	0						GCCTTGCTGGTTTGGAAAGTT	0.468													24	56	---	---	---	---	PASS
DGKI	9162	broad.mit.edu	37	7	137075955	137075955	+	3'UTR	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:137075955G>A	uc003vtt.2	-	34					DGKI_uc003vtu.2_3'UTR	NM_004717	NP_004708	O75912	DGKI_HUMAN	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						CTCTTTGCCCGAATACCAGGG	0.522													25	44	---	---	---	---	PASS
DGKI	9162	broad.mit.edu	37	7	137148311	137148311	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:137148311C>T	uc003vtt.2	-	28	2684	c.2683G>A	c.(2683-2685)GAC>AAC	p.D895N	DGKI_uc003vtu.2_Intron	NM_004717	NP_004708	O75912	DGKI_HUMAN	diacylglycerol kinase, iota	895					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						AGCCCACTGTCACTCAGCATG	0.502													19	33	---	---	---	---	PASS
AKR1D1	6718	broad.mit.edu	37	7	137773434	137773434	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:137773434G>A	uc003vtz.2	+	2	250	c.181G>A	c.(181-183)GAA>AAA	p.E61K	AKR1D1_uc011kqb.1_Missense_Mutation_p.E61K|AKR1D1_uc011kqc.1_RNA|AKR1D1_uc011kqd.1_Intron|AKR1D1_uc011kqe.1_Missense_Mutation_p.E61K|AKR1D1_uc011kqf.1_Missense_Mutation_p.E61K	NM_005989	NP_005980	P51857	AK1D1_HUMAN	aldo-keto reductase family 1, member D1	61					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						CTACCAAAATGAACACGAAGT	0.498													6	22	---	---	---	---	PASS
KIAA1549	57670	broad.mit.edu	37	7	138552764	138552764	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:138552764C>T	uc011kql.1	-	15	4935	c.4886G>A	c.(4885-4887)AGG>AAG	p.R1629K	KIAA1549_uc011kqi.1_Missense_Mutation_p.R413K|KIAA1549_uc003vuk.3_Missense_Mutation_p.R1579K|KIAA1549_uc011kqj.1_Missense_Mutation_p.R1629K|KIAA1549_uc011kqk.1_Missense_Mutation_p.R413K	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	1629						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						GGGGGGCCTCCTGTAGGTGCC	0.622			O	BRAF	pilocytic astrocytoma								6	17	---	---	---	---	PASS
KIAA1549	57670	broad.mit.edu	37	7	138554436	138554436	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:138554436G>A	uc011kql.1	-	14	4672	c.4623C>T	c.(4621-4623)CGC>CGT	p.R1541R	KIAA1549_uc011kqi.1_Silent_p.R325R|KIAA1549_uc003vuk.3_Silent_p.R1491R|KIAA1549_uc011kqj.1_Silent_p.R1541R|KIAA1549_uc011kqk.1_Silent_p.R325R	NM_020910	NP_065961	Q9HCM3	K1549_HUMAN	hypothetical protein LOC57670 isoform 1	1541						integral to membrane			KIAA1549/BRAF(229)	central_nervous_system(229)|pancreas(1)	230						AGTGCCCGCGGCGCTTGGCGC	0.617			O	BRAF	pilocytic astrocytoma								6	10	---	---	---	---	PASS
UBN2	254048	broad.mit.edu	37	7	138946238	138946238	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:138946238C>T	uc011kqr.1	+	6	1146	c.1146C>T	c.(1144-1146)CCC>CCT	p.P382P	UBN2_uc003vuv.2_Silent_p.P105P	NM_173569	NP_775840	Q6ZU65	UBN2_HUMAN	ubinuclein 2	382										ovary(1)|skin(1)	2						CAGACCTTCCCATTTTTGTTA	0.473													24	47	---	---	---	---	PASS
TBXAS1	6916	broad.mit.edu	37	7	139611012	139611012	+	Intron	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:139611012T>C	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|TBXAS1_uc011kqx.1_Intron	NM_001130966	NP_001124438	P24557	THAS_HUMAN	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)					ATGCATTTTTTATTCCTCCCA	0.378													26	32	---	---	---	---	PASS
DENND2A	27147	broad.mit.edu	37	7	140218550	140218550	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:140218550G>A	uc010lnj.2	-						DENND2A_uc011kre.1_Intron|DENND2A_uc010lnk.2_Intron|DENND2A_uc003vvw.2_Intron	NM_015689	NP_056504	Q9ULE3	DEN2A_HUMAN	DENN/MADD domain containing 2A											ovary(3)|breast(1)	4	Melanoma(164;0.00956)					TAAAAAAAAGGAAAATGAGAA	0.453													8	27	---	---	---	---	PASS
TAS2R4	50832	broad.mit.edu	37	7	141478589	141478589	+	Silent	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:141478589T>C	uc003vwq.1	+	1	301	c.301T>C	c.(301-303)TTG>CTG	p.L101L		NM_016944	NP_058640	Q9NYW5	TA2R4_HUMAN	taste receptor T2R4	101	Helical; Name=3; (Potential).				sensory perception of taste	cilium membrane	taste receptor activity				0	Melanoma(164;0.0171)			BRCA - Breast invasive adenocarcinoma(188;0.196)		GTTTGTGACCTTGCTCAATAT	0.443													27	46	---	---	---	---	PASS
MGAM	8972	broad.mit.edu	37	7	141756627	141756627	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:141756627C>T	uc003vwy.2	+							NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase						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)	TCTTTATTTTCAGATGTGACG	0.517													8	18	---	---	---	---	PASS
MGAM	8972	broad.mit.edu	37	7	141765635	141765635	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:141765635G>A	uc003vwy.2	+							NM_004668	NP_004659	O43451	MGA_HUMAN	maltase-glucoamylase						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)	GACCAGGGTAGGACAGTGGCT	0.453													11	1	---	---	---	---	PASS
TRYX3	136541	broad.mit.edu	37	7	141952383	141952383	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:141952383T>C	uc003vxb.2	-	4	805	c.485A>G	c.(484-486)AAG>AGG	p.K162R	TRYX3_uc003vxc.3_Missense_Mutation_p.K162R	NM_001001317	NP_001001317	Q8IYP2	PRS58_HUMAN	trypsin X3 precursor	162	Peptidase S1.				proteolysis	extracellular region	serine-type endopeptidase activity				0	Melanoma(164;0.0272)					ACACTGAGGCTTGGAGATTAC	0.423													29	57	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	7	142197631	142197631	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:142197631G>A	uc011kro.1	+						uc011krp.1_Intron|uc011krr.1_Intron|uc011krx.1_Intron|uc011ksa.1_Intron|uc011ksb.1_RNA					SubName: Full=V_segment translation product; Flags: Fragment;																		TGGATCTTGAGAGTGGAGTCT	0.483													13	136	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	7	142223881	142223881	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:142223881G>A	uc011krp.1	+						uc011krr.1_Intron|uc011krx.1_Intron|uc011ksa.1_Intron|uc003vyi.2_Missense_Mutation_p.L96F					Homo sapiens mRNA for T cell receptor beta variable 3, partial cds, clone: un 191.																		TGGATCTTGAGAGTGGAGTCT	0.498													26	153	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	7	142378608	142378608	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:142378608C>T	uc011krp.1	+						uc011krr.1_Intron|uc003vzp.2_Intron|uc011ksh.1_Intron|uc011ksi.1_Intron|uc003vzw.1_Intron|uc010loj.1_Intron|uc011ksg.1_Intron|uc003waa.1_5'Flank					Homo sapiens mRNA for T cell receptor beta variable 3, partial cds, clone: un 191.																		CCAACTGTGCCATGACTATCA	0.478													6	6	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	7	142500194	142500194	+	RNA	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:142500194G>A	uc003wbe.3	+	5		c.573G>A			uc003wbf.3_RNA|uc003wbh.3_Missense_Mutation_p.R220K|uc003wbi.3_RNA|uc003wbm.3_RNA|uc003wbn.3_RNA|uc010los.2_RNA					Homo sapiens mRNA for T cell receptor V beta14-D-J, partial cds.																		CAGGTCAAGAGAAAGGATTCC	0.517													8	7	---	---	---	---	PASS
KEL	3792	broad.mit.edu	37	7	142638489	142638489	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:142638489C>T	uc003wcb.2	-	19	2259	c.2049G>A	c.(2047-2049)AGG>AGA	p.R683R		NM_000420	NP_000411	P23276	KELL_HUMAN	Kell blood group, metallo-endopeptidase	683	Extracellular (Potential).				proteolysis|vasoconstriction	integral to membrane|plasma membrane	metal ion binding|metalloendopeptidase activity|protein binding			ovary(3)|central_nervous_system(1)	4	Melanoma(164;0.059)					GGCTGGGCTTCCTACACATCA	0.607													13	45	---	---	---	---	PASS
OR9A2	135924	broad.mit.edu	37	7	142723949	142723949	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:142723949G>A	uc003wcc.1	-	1	271	c.271C>T	c.(271-273)CAG>TAG	p.Q91*		NM_001001658	NP_001001658	Q8NGT5	OR9A2_HUMAN	olfactory receptor, family 9, subfamily A,	91	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1	Melanoma(164;0.059)					GAAAGATACTGTCTGCATCCC	0.478													19	35	---	---	---	---	PASS
TMEM139	135932	broad.mit.edu	37	7	142983529	142983529	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:142983529C>T	uc010lov.2	+	4	397	c.258C>T	c.(256-258)GCC>GCT	p.A86A	CASP2_uc003wco.2_5'Flank|CASP2_uc003wcp.2_5'Flank|CASP2_uc011kta.1_5'Flank|TMEM139_uc003wck.3_Silent_p.A86A|TMEM139_uc003wcl.2_Silent_p.A86A|TMEM139_uc003wcm.2_Silent_p.A86A|TMEM139_uc003wcn.2_RNA	NM_153345	NP_699176	Q8IV31	TM139_HUMAN	transmembrane protein 139 precursor	86	Cytoplasmic (Potential).					integral to membrane					0	Melanoma(164;0.059)					ACAATGAAGCCTTTGAAGTGC	0.512													29	64	---	---	---	---	PASS
CLCN1	1180	broad.mit.edu	37	7	143043326	143043326	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:143043326G>A	uc003wcr.1	+	18	2353	c.2266G>A	c.(2266-2268)GAA>AAA	p.E756K	CLCN1_uc011ktc.1_Missense_Mutation_p.E368K	NM_000083	NP_000074	P35523	CLCN1_HUMAN	chloride channel 1, skeletal muscle	756	Cytoplasmic (By similarity).				muscle contraction	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Melanoma(164;0.205)					ACAGCAGCCGGAAGCACCAGA	0.597													6	11	---	---	---	---	PASS
CLCN1	1180	broad.mit.edu	37	7	143048731	143048731	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:143048731C>T	uc003wcr.1	+	23	2727	c.2640C>T	c.(2638-2640)CTC>CTT	p.L880L	CLCN1_uc011ktc.1_Silent_p.L492L	NM_000083	NP_000074	P35523	CLCN1_HUMAN	chloride channel 1, skeletal muscle	880	Cytoplasmic (By similarity).				muscle contraction	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			ovary(2)|breast(1)|central_nervous_system(1)|skin(1)	5	Melanoma(164;0.205)					GGGTGCAGCTCCGCCCTCCCC	0.478													13	17	---	---	---	---	PASS
FAM131B	9715	broad.mit.edu	37	7	143054093	143054093	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:143054093C>T	uc003wct.2	-	6	2255	c.549G>A	c.(547-549)ATG>ATA	p.M183I	FAM131B_uc010loz.2_Missense_Mutation_p.M151I|FAM131B_uc003wcu.3_Missense_Mutation_p.M183I|FAM131B_uc010lpa.2_Missense_Mutation_p.M211I	NM_014690	NP_055505	Q86XD5	F131B_HUMAN	hypothetical protein LOC9715 isoform b	183											0	Melanoma(164;0.205)					GCCATCCATCCATGGGTGCTT	0.498													12	21	---	---	---	---	PASS
TAS2R60	338398	broad.mit.edu	37	7	143140607	143140607	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:143140607T>C	uc011ktg.1	+	1	62	c.62T>C	c.(61-63)GTT>GCT	p.V21A	uc003wda.2_Intron	NM_177437	NP_803186	P59551	T2R60_HUMAN	taste receptor, type 2, member 60	21	Helical; Name=1; (Potential).				sensory perception of bitter taste	integral to membrane	G-protein coupled receptor activity			skin(6)	6	Melanoma(164;0.172)					ATCATCTTGGTTACCATTTTA	0.502													32	94	---	---	---	---	PASS
TAS2R60	338398	broad.mit.edu	37	7	143141125	143141125	+	Missense_Mutation	SNP	C	T	T	rs117057228	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:143141125C>T	uc011ktg.1	+	1	580	c.580C>T	c.(580-582)CTC>TTC	p.L194F	uc003wda.2_Intron	NM_177437	NP_803186	P59551	T2R60_HUMAN	taste receptor, type 2, member 60	194	Helical; Name=5; (Potential).				sensory perception of bitter taste	integral to membrane	G-protein coupled receptor activity			skin(6)	6	Melanoma(164;0.172)					GAAATTCTATCTCTTCCCTCT	0.418													26	65	---	---	---	---	PASS
FAM115A	9747	broad.mit.edu	37	7	143573429	143573429	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:143573429G>A	uc003wdo.1	-	2	406	c.273C>T	c.(271-273)CCC>CCT	p.P91P	FAM115A_uc011ktu.1_Intron|FAM115A_uc003wdp.1_Silent_p.P91P	NM_014719	NP_055534	Q9Y4C2	F115A_HUMAN	hypothetical protein LOC9747	91											0	Melanoma(164;0.0903)					GTACACCAATGGGAGCCCCAG	0.587													15	38	---	---	---	---	PASS
OR2F1	26211	broad.mit.edu	37	7	143657094	143657094	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:143657094G>A	uc003wds.1	+	1	75	c.31G>A	c.(31-33)GAA>AAA	p.E11K		NM_012369	NP_036501	Q13607	OR2F1_HUMAN	olfactory receptor, family 2, subfamily F,	11	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	Melanoma(164;0.0903)					TTGGGTGAGTGAATTTATTCT	0.438													16	68	---	---	---	---	PASS
OR2F1	26211	broad.mit.edu	37	7	143657642	143657642	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:143657642C>T	uc003wds.1	+	1	623	c.579C>T	c.(577-579)TCC>TCT	p.S193S		NM_012369	NP_036501	Q13607	OR2F1_HUMAN	olfactory receptor, family 2, subfamily F,	193	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)	3	Melanoma(164;0.0903)					TGGACACCTCCTCCAATGAGG	0.478													18	32	---	---	---	---	PASS
OR2A25	392138	broad.mit.edu	37	7	143771942	143771942	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:143771942C>T	uc011ktx.1	+	1	630	c.630C>T	c.(628-630)TTC>TTT	p.F210F		NM_001004488	NP_001004488	A4D2G3	O2A25_HUMAN	olfactory receptor, family 2, subfamily A,	210	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Melanoma(164;0.0783)					TGGGAGCCTTCTTTTCCACTG	0.473													23	60	---	---	---	---	PASS
OR2A2	442361	broad.mit.edu	37	7	143807315	143807315	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:143807315C>T	uc011ktz.1	+	1	640	c.640C>T	c.(640-642)CTG>TTG	p.L214L		NM_001005480	NP_001005480	Q6IF42	OR2A2_HUMAN	olfactory receptor, family 2, subfamily A,	214	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Melanoma(164;0.0783)					TTCCTTGATTCTGGTCTCCTA	0.537													45	92	---	---	---	---	PASS
OR2A14	135941	broad.mit.edu	37	7	143826661	143826661	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:143826661C>T	uc011kua.1	+	1	456	c.456C>T	c.(454-456)TTC>TTT	p.F152F		NM_001001659	NP_001001659	Q96R47	O2A14_HUMAN	olfactory receptor, family 2, subfamily A,	152	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Melanoma(164;0.0783)					TGTTCAGCTTCCTCCTGGCTC	0.532													48	108	---	---	---	---	PASS
OR2A7	401427	broad.mit.edu	37	7	143956673	143956673	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:143956673G>A	uc011kuc.1	-	1	49	c.49C>T	c.(49-51)CCC>TCC	p.P17S	OR2A9P_uc003wec.1_Intron|OR2A7_uc003wef.2_3'UTR	NM_001005328	NP_001005328	Q96R45	OR2A7_HUMAN	olfactory receptor, family 2, subfamily A,	17	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	Melanoma(164;0.14)					GGGCCAACGGGAAATCCCAGT	0.493													33	275	---	---	---	---	PASS
NOBOX	135935	broad.mit.edu	37	7	144101747	144101747	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:144101747G>A	uc011kue.1	-	2	112	c.112C>T	c.(112-114)CCT>TCT	p.P38S		NM_001080413	NP_001073882	O60393	NOBOX_HUMAN	NOBOX oogenesis homeobox	38					cell differentiation|oogenesis	nucleus	sequence-specific DNA binding			ovary(1)	1	Melanoma(164;0.14)					CCACACACAGGAAATTCAGGT	0.517													22	45	---	---	---	---	PASS
TPK1	27010	broad.mit.edu	37	7	144245695	144245695	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:144245695C>T	uc003weq.2	-	8	605	c.502G>A	c.(502-504)GGA>AGA	p.G168R	TPK1_uc003weo.2_Missense_Mutation_p.G114R|TPK1_uc003wep.2_RNA|TPK1_uc003wer.2_Missense_Mutation_p.G119R|TPK1_uc003wes.2_RNA	NM_022445	NP_071890	Q9H3S4	TPK1_HUMAN	thiamin pyrophosphokinase 1 isoform a	168					thiamine diphosphate biosynthetic process	cytosol	ATP binding|kinase activity|thiamine diphosphokinase activity			ovary(2)	2					Thiamine(DB00152)	CTGTGCTTTCCCTGAAGGAGA	0.493													16	30	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	7	144703090	144703090	+	IGR	SNP	C	T	T	rs112965122		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:144703090C>T								TPK1 (169944 upstream) : None (None downstream)																							CAGCGTACCTCTTCCAGTTGT	0.493													77	150	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	7	144708010	144708010	+	IGR	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:144708010G>A								TPK1 (174864 upstream) : None (None downstream)																							TGTAGAGGAAGAGGAAGATCA	0.373													20	39	---	---	---	---	PASS
CNTNAP2	26047	broad.mit.edu	37	7	146536856	146536856	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:146536856G>A	uc003weu.1	+	3	778	c.262G>A	c.(262-264)GAC>AAC	p.D88N		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	88	F5/8 type C.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			GCTTCAGGTTGACTTTGGCAA	0.483										HNSCC(39;0.1)			20	28	---	---	---	---	PASS
CNTNAP2	26047	broad.mit.edu	37	7	146741005	146741005	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:146741005C>T	uc003weu.1	+	4	925	c.409C>T	c.(409-411)CCC>TCC	p.P137S		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	137	F5/8 type C.|Extracellular (Potential).				behavior|cell adhesion|clustering of voltage-gated potassium channels|limbic system development|neuron recognition|signal transduction|striatum development|superior temporal gyrus development|thalamus development|transmission of nerve impulse	axolemma|cell body fiber|dendrite|juxtaparanode region of axon|voltage-gated potassium channel complex	receptor binding			ovary(9)|central_nervous_system(1)|pancreas(1)	11	Melanoma(164;0.153)	all_cancers(3;3.51e-10)|all_epithelial(3;1.4e-05)|Myeloproliferative disorder(3;0.00452)|Lung NSC(3;0.0067)|all_lung(3;0.00794)	OV - Ovarian serous cystadenocarcinoma(82;0.0319)			CCAGGCATTTCCCGGAAACAT	0.408										HNSCC(39;0.1)			15	39	---	---	---	---	PASS
CNTNAP2	26047	broad.mit.edu	37	7	147092776	147092776	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:147092776A>C	uc003weu.1	+	10	2090	c.1574A>C	c.(1573-1575)CAA>CCA	p.Q525P		NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	cell recognition molecule Caspr2 precursor	525	Extracellular (Potential).|Laminin G-like 2.				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)			CAGCTCATTCAAGTGGACGAT	0.433										HNSCC(39;0.1)			31	89	---	---	---	---	PASS
CNTNAP2	26047	broad.mit.edu	37	7	148112502	148112502	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:148112502C>T	uc003weu.1	+						CNTNAP2_uc003wev.1_Intron	NM_014141	NP_054860	Q9UHC6	CNTP2_HUMAN	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)			TCTCCTTTCTCCGTCAGGCGT	0.547										HNSCC(39;0.1)			6	15	---	---	---	---	PASS
EZH2	2146	broad.mit.edu	37	7	148511204	148511204	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:148511204G>A	uc003wfd.1	-	15	1849	c.1683C>T	c.(1681-1683)CGC>CGT	p.R561R	EZH2_uc011kug.1_Silent_p.R510R|EZH2_uc003wfb.1_Silent_p.R566R|EZH2_uc003wfc.1_Silent_p.R522R|EZH2_uc011kuh.1_Silent_p.R552R	NM_004456	NP_004447	Q15910	EZH2_HUMAN	enhancer of zeste 2 isoform a	561	Cys-rich.				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)			GTGCTTTGCAGCGGCATCCCG	0.498			Mis		DLBCL								29	80	---	---	---	---	PASS
ZNF398	57541	broad.mit.edu	37	7	148876626	148876626	+	Silent	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:148876626A>T	uc003wfl.2	+	6	1937	c.1662A>T	c.(1660-1662)CTA>CTT	p.L554L	ZNF398_uc011kul.1_Silent_p.L383L|ZNF398_uc011kum.1_Silent_p.L559L	NM_170686	NP_733787	Q8TD17	ZN398_HUMAN	zinc finger 398 isoform a	554	C2H2-type 8.				positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	Melanoma(164;0.15)		OV - Ovarian serous cystadenocarcinoma(82;0.00143)			AGCACCACCTAATGAAACACC	0.612													20	51	---	---	---	---	PASS
ZNF767	79970	broad.mit.edu	37	7	149318402	149318402	+	RNA	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:149318402C>T	uc003wfy.3	-	2		c.498G>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)			TCCAGAAGTTCCTGTTGTGCA	0.692													25	62	---	---	---	---	PASS
SSPO	23145	broad.mit.edu	37	7	149489695	149489695	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:149489695C>T	uc010lpk.2	+	39	5751	c.5751C>T	c.(5749-5751)CCC>CCT	p.P1917P		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	1917	TSP type-1 3.				cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CCTGGTCACCCTGGGCCAAGT	0.672													7	20	---	---	---	---	PASS
SSPO	23145	broad.mit.edu	37	7	149500625	149500625	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:149500625C>T	uc010lpk.2	+	55	8026	c.8026C>T	c.(8026-8028)CCC>TCC	p.P2676S		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	2676					cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CTCTGAGTGCCCCTGCCTGGT	0.662													8	22	---	---	---	---	PASS
SSPO	23145	broad.mit.edu	37	7	149508026	149508026	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:149508026G>A	uc010lpk.2	+	67	9420	c.9420G>A	c.(9418-9420)CAG>CAA	p.Q3140Q		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	3140					cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			TGCCCACCCAGGACTGCCCCT	0.622													5	14	---	---	---	---	PASS
SSPO	23145	broad.mit.edu	37	7	149512315	149512315	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:149512315C>T	uc010lpk.2	+	76	10635	c.10635C>T	c.(10633-10635)TCC>TCT	p.S3545S		NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor	3545					cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			GCCCCCGCTCCTGCCAGGACC	0.682													15	9	---	---	---	---	PASS
SSPO	23145	broad.mit.edu	37	7	149514982	149514982	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:149514982C>T	uc010lpk.2	+							NM_198455	NP_940857	A2VEC9	SSPO_HUMAN	SCO-spondin precursor						cell adhesion	extracellular space	peptidase inhibitor activity				0	Melanoma(164;0.165)|Ovarian(565;0.177)		OV - Ovarian serous cystadenocarcinoma(82;0.00625)			CCTGGCTCTTCCCCCAGCTCG	0.647													9	24	---	---	---	---	PASS
ZNF862	643641	broad.mit.edu	37	7	149558300	149558300	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:149558300C>T	uc010lpn.2	+	7	2243	c.2051C>T	c.(2050-2052)CCC>CTC	p.P684L	ZNF862_uc003wgm.2_RNA	NM_001099220	NP_001092690	O60290	ZN862_HUMAN	zinc finger protein 862	684					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	metal ion binding|nucleic acid binding|protein dimerization activity			skin(1)	1						CTGGACATCCCCTTCCGGAAG	0.587													7	10	---	---	---	---	PASS
GIMAP2	26157	broad.mit.edu	37	7	150390377	150390377	+	Missense_Mutation	SNP	C	T	T	rs149326002		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:150390377C>T	uc003who.2	+	3	1091	c.1003C>T	c.(1003-1005)CCT>TCT	p.P335S	GIMAP1_uc003whp.2_Intron	NM_015660	NP_056475	Q9UG22	GIMA2_HUMAN	GTPase, IMAP family member 2	335						integral to membrane	GTP binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		ACGCAAGACTCCTAGGTTATA	0.323													5	13	---	---	---	---	PASS
GIMAP1	170575	broad.mit.edu	37	7	150417417	150417417	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:150417417G>A	uc003whq.2	+	3	412	c.325G>A	c.(325-327)GCC>ACC	p.A109T	GIMAP1_uc003whp.2_Missense_Mutation_p.A117T	NM_130759	NP_570115	Q8WWP7	GIMA1_HUMAN	GTPase, IMAP family member 1	109	Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane	GTP binding			ovary(1)|breast(1)|central_nervous_system(1)	3			OV - Ovarian serous cystadenocarcinoma(82;0.0145)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CCTGCTCTCGGCCCCCGGACC	0.637													4	21	---	---	---	---	PASS
SLC4A2	6522	broad.mit.edu	37	7	150771338	150771338	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:150771338C>T	uc003wit.3	+	17	3004	c.2748C>T	c.(2746-2748)TTC>TTT	p.F916F	SLC4A2_uc011kve.1_Silent_p.F907F|SLC4A2_uc003wiu.3_Silent_p.F902F|SLC4A2_uc003wiv.3_Silent_p.F110F	NM_003040	NP_003031	P04920	B3A2_HUMAN	solute carrier family 4, anion exchanger, member	916	Helical; (Potential).|Membrane (anion exchange).				bicarbonate transport	integral to membrane|membrane fraction	inorganic anion exchanger activity				0			OV - Ovarian serous cystadenocarcinoma(82;0.0121)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TCATCGCCTTCTTCCTGCGCA	0.647													15	16	---	---	---	---	PASS
WDR86	349136	broad.mit.edu	37	7	151093117	151093117	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:151093117C>T	uc003wkb.2	-	3	920	c.471G>A	c.(469-471)GCG>GCA	p.A157A	WDR86_uc003wka.2_Silent_p.A115A|WDR86_uc011kvk.1_Silent_p.A157A|WDR86_uc003wkc.2_Silent_p.A29A	NM_198285	NP_938026	Q86TI4	WDR86_HUMAN	WD repeat domain 86	157	WD 4.										0			OV - Ovarian serous cystadenocarcinoma(82;0.00419)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		CGGCCTCCTCCGCGCAGGGAG	0.711													3	7	---	---	---	---	PASS
MLL3	58508	broad.mit.edu	37	7	151860306	151860306	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:151860306G>A	uc003wla.2	-	43	10575	c.10356C>T	c.(10354-10356)CCC>CCT	p.P3452P	MLL3_uc003wkz.2_Silent_p.P2513P|MLL3_uc003wky.2_Silent_p.P961P	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	3452	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)		AACTGTAGAAGGGAATCTGGG	0.478			N		medulloblastoma								30	104	---	---	---	---	PASS
MLL3	58508	broad.mit.edu	37	7	151860307	151860307	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:151860307G>A	uc003wla.2	-	43	10574	c.10355C>T	c.(10354-10356)CCC>CTC	p.P3452L	MLL3_uc003wkz.2_Missense_Mutation_p.P2513L|MLL3_uc003wky.2_Missense_Mutation_p.P961L	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	myeloid/lymphoid or mixed-lineage leukemia 3	3452	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)		ACTGTAGAAGGGAATCTGGGA	0.478			N		medulloblastoma								30	103	---	---	---	---	PASS
MLL3	58508	broad.mit.edu	37	7	151902321	151902321	+	Intron	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:151902321A>T	uc003wla.2	-						MLL3_uc003wkz.2_Intron	NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	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	p.?(1)		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)		CTATCCAAAAAAGAAATTAGG	0.358			N		medulloblastoma								5	15	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	7	152144068	152144068	+	IGR	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:152144068G>A								FABP5L3 (3970 upstream) : LOC100128822 (17141 downstream)																							CAAAGCCCAAGGATTTCGAGC	0.517													28	58	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	7	152144069	152144069	+	IGR	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:152144069G>A								FABP5L3 (3971 upstream) : LOC100128822 (17140 downstream)																							AAAGCCCAAGGATTTCGAGCA	0.522													28	58	---	---	---	---	PASS
HTR5A	3361	broad.mit.edu	37	7	154876017	154876017	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:154876017G>A	uc003wlu.1	+	2	958	c.894G>A	c.(892-894)TGG>TGA	p.W298*		NM_024012	NP_076917	P47898	5HT5A_HUMAN	5-hydroxytryptamine receptor 5A	298	Helical; Name=6; (By similarity).					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)		TGCTCTGCTGGATCCCCTTCT	0.607													31	59	---	---	---	---	PASS
RBM33	155435	broad.mit.edu	37	7	155534782	155534782	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:155534782G>C	uc010lqk.1	+	13	2687	c.2319G>C	c.(2317-2319)GAG>GAC	p.E773D	RBM33_uc011kvv.1_Missense_Mutation_p.E582D	NM_053043	NP_444271	Q96EV2	RBM33_HUMAN	RNA binding motif protein 33	773							nucleotide binding|RNA binding			ovary(1)	1	all_neural(206;0.101)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.011)	UCEC - Uterine corpus endometrioid carcinoma (81;0.2)		CTAAAGAAGAGGCAAAAACAG	0.493													8	23	---	---	---	---	PASS
SHH	6469	broad.mit.edu	37	7	155604732	155604732	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:155604732C>T	uc003wmk.1	-	1	236	c.85G>A	c.(85-87)GGG>AGG	p.G29R	SHH_uc003wmh.1_5'Flank|SHH_uc003wmi.1_5'Flank|SHH_uc003wmj.1_5'Flank	NM_000193	NP_000184	Q15465	SHH_HUMAN	sonic hedgehog preproprotein	29					androgen metabolic process|axon guidance|branching involved in ureteric bud morphogenesis|CD4-positive or CD8-positive, alpha-beta T cell lineage commitment|embryonic digit morphogenesis|hindbrain development|intein-mediated protein splicing|lymphoid progenitor cell differentiation|metanephric mesenchymal cell proliferation involved in metanephros development|midbrain development|negative regulation of cell migration|negative regulation of kidney smooth muscle cell differentiation|negative regulation of ureter smooth muscle cell differentiation|negative thymic T cell selection|neural crest cell migration|neuroblast proliferation|patterning of blood vessels|positive regulation of alpha-beta T cell differentiation|positive regulation of immature T cell proliferation in thymus|positive regulation of kidney smooth muscle cell differentiation|positive regulation of mesenchymal cell proliferation involved in ureter development|positive regulation of T cell differentiation in thymus|positive regulation of ureter smooth muscle cell differentiation|positive thymic T cell selection|proteolysis|sclerotome development|stem cell development|thymus development|vasculogenesis|ventral midline development	cell surface|extracellular space|membrane raft|plasma membrane	calcium ion binding|laminin-1 binding|peptidase activity|signal transducer activity|zinc ion binding			central_nervous_system(3)|lung(1)	4	all_neural(206;0.101)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.00882)	UCEC - Uterine corpus endometrioid carcinoma (81;0.168)		TTCCCGAACCCCCTGCCCGGT	0.612													37	52	---	---	---	---	PASS
NOM1	64434	broad.mit.edu	37	7	156756588	156756588	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:156756588C>T	uc003wmy.2	+						NOM1_uc010lqp.1_3'UTR	NM_138400	NP_612409	Q5C9Z4	NOM1_HUMAN	nucleolar protein with MIF4G domain 1						RNA metabolic process	nucleolus	protein binding				0	Ovarian(565;0.218)	all_hematologic(28;0.0749)	OV - Ovarian serous cystadenocarcinoma(82;0.00301)	UCEC - Uterine corpus endometrioid carcinoma (81;0.169)		GTCCATTCATCGTGCTTCCAG	0.473													11	26	---	---	---	---	PASS
PTPRN2	5799	broad.mit.edu	37	7	157396775	157396775	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:157396775G>A	uc003wno.2	-						PTPRN2_uc003wnp.2_Intron|PTPRN2_uc003wnq.2_Intron|PTPRN2_uc003wnr.2_Intron|PTPRN2_uc011kwa.1_Intron	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	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)		CATCTGCAAGGACACAGTGCA	0.637													9	20	---	---	---	---	PASS
PTPRN2	5799	broad.mit.edu	37	7	157931004	157931004	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:157931004G>A	uc003wno.2	-	7	1235	c.1114C>T	c.(1114-1116)CGT>TGT	p.R372C	PTPRN2_uc003wnp.2_Missense_Mutation_p.R355C|PTPRN2_uc003wnq.2_Missense_Mutation_p.R372C|PTPRN2_uc003wnr.2_Missense_Mutation_p.R334C|PTPRN2_uc011kwa.1_Missense_Mutation_p.R395C	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	372	Extracellular (Potential).					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)		CTGTCTCCACGGAGGGTGGCC	0.677													8	15	---	---	---	---	PASS
PTPRN2	5799	broad.mit.edu	37	7	157959909	157959909	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:157959909G>A	uc003wno.2	-	6	745	c.624C>T	c.(622-624)TCC>TCT	p.S208S	PTPRN2_uc003wnp.2_Silent_p.S191S|PTPRN2_uc003wnq.2_Silent_p.S208S|PTPRN2_uc003wnr.2_Silent_p.S170S|PTPRN2_uc011kwa.1_Silent_p.S231S	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	protein tyrosine phosphatase, receptor type, N	208	Extracellular (Potential).					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)		GCTGGGTCCGGGACCCGGGAG	0.632													8	27	---	---	---	---	PASS
WDR60	55112	broad.mit.edu	37	7	158677292	158677292	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:158677292G>A	uc003woe.3	+	6	1075	c.917G>A	c.(916-918)AGA>AAA	p.R306K	WDR60_uc010lqv.2_RNA|WDR60_uc010lqw.2_5'UTR	NM_018051	NP_060521	Q8WVS4	WDR60_HUMAN	WD repeat domain 60	306										ovary(2)|breast(1)|central_nervous_system(1)	4	Ovarian(565;0.152)	all_cancers(7;1.25e-09)|all_epithelial(9;0.000894)|all_hematologic(28;0.00603)	OV - Ovarian serous cystadenocarcinoma(82;0.00174)	UCEC - Uterine corpus endometrioid carcinoma (81;0.19)|STAD - Stomach adenocarcinoma(7;0.18)		AGCTCAAAAAGAGATGGGACC	0.423													11	28	---	---	---	---	PASS
DLGAP2	9228	broad.mit.edu	37	8	1497235	1497235	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:1497235G>A	uc003wpl.2	+	2	473	c.376G>A	c.(376-378)GGC>AGC	p.G126S	DLGAP2_uc003wpm.2_Missense_Mutation_p.G126S	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	205					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)		GCACCGGGACGGCTTCCACAC	0.701													4	1	---	---	---	---	PASS
DLGAP2	9228	broad.mit.edu	37	8	1497405	1497405	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:1497405G>A	uc003wpl.2	+	2	643	c.546G>A	c.(544-546)CGG>CGA	p.R182R	DLGAP2_uc003wpm.2_Silent_p.R182R	NM_004745	NP_004736	Q9P1A6	DLGP2_HUMAN	discs large-associated protein 2	261					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)		CGGACGGCCGGGCGGACGACC	0.667													5	7	---	---	---	---	PASS
MYOM2	9172	broad.mit.edu	37	8	2005459	2005459	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:2005459C>T	uc003wpx.3	+						MYOM2_uc011kwi.1_Intron	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2						muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		CTTCTCGGCTCCTGCAGGTAC	0.622													5	11	---	---	---	---	PASS
MYOM2	9172	broad.mit.edu	37	8	2044079	2044079	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:2044079C>T	uc003wpx.3	+						MYOM2_uc011kwi.1_Intron	NM_003970	NP_003961	P54296	MYOM2_HUMAN	myomesin 2						muscle contraction	myosin filament	structural constituent of muscle			ovary(4)|central_nervous_system(1)|skin(1)	6		Ovarian(12;0.0572)|Colorectal(14;0.0844)|Hepatocellular(245;0.217)		BRCA - Breast invasive adenocarcinoma(11;1.85e-05)|Colorectal(4;0.0101)|READ - Rectum adenocarcinoma(4;0.148)|COAD - Colon adenocarcinoma(4;0.179)		GGTTGTGCTTCCTTGCAGCCG	0.617													39	113	---	---	---	---	PASS
CSMD1	64478	broad.mit.edu	37	8	2808739	2808739	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:2808739C>T	uc011kwk.1	-	66	10491	c.10101G>A	c.(10099-10101)GGG>GGA	p.G3367G	CSMD1_uc011kwj.1_Silent_p.G2681G|CSMD1_uc010lrg.2_Silent_p.G1258G	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	3367	Extracellular (Potential).					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)		GTTGTCTTTTCCCTAAATATT	0.473													8	21	---	---	---	---	PASS
CSMD1	64478	broad.mit.edu	37	8	2876151	2876151	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:2876151G>A	uc011kwk.1	-	52	8270	c.7880C>T	c.(7879-7881)TCC>TTC	p.S2627F	CSMD1_uc011kwj.1_Missense_Mutation_p.S1956F|CSMD1_uc010lrg.2_Intron	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2627	Extracellular (Potential).|Sushi 17.					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)		TGGGGGAAAGGAAAGGCTTCC	0.398													49	131	---	---	---	---	PASS
CSMD1	64478	broad.mit.edu	37	8	2966239	2966239	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:2966239C>T	uc011kwk.1	-	44	7033	c.6643G>A	c.(6643-6645)GGA>AGA	p.G2215R	CSMD1_uc011kwj.1_Missense_Mutation_p.G1607R|CSMD1_uc010lrg.2_Missense_Mutation_p.G283R	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	2215	Extracellular (Potential).|CUB 13.					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)		CTGAAAACTCCCAGCTGGGGT	0.493													17	18	---	---	---	---	PASS
CSMD1	64478	broad.mit.edu	37	8	2967675	2967675	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:2967675C>T	uc011kwk.1	-						CSMD1_uc011kwj.1_Intron|CSMD1_uc010lrg.2_Intron	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	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)		GAGAGGTTCTCATACCAAACA	0.403													11	16	---	---	---	---	PASS
CSMD1	64478	broad.mit.edu	37	8	3047579	3047579	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:3047579C>T	uc011kwk.1	-	34	5646	c.5256G>A	c.(5254-5256)AGG>AGA	p.R1752R	CSMD1_uc011kwj.1_Silent_p.R1144R|CSMD1_uc003wqe.2_Silent_p.R908R|CSMD1_uc010lrg.2_5'Flank	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1752	Sushi 10.|Extracellular (Potential).					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)		AACCAATTCTCCTTCCGTATC	0.562													5	8	---	---	---	---	PASS
CSMD1	64478	broad.mit.edu	37	8	3063068	3063068	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:3063068C>T	uc011kwk.1	-	31	5335	c.4945G>A	c.(4945-4947)GGT>AGT	p.G1649S	CSMD1_uc011kwj.1_Missense_Mutation_p.G1041S|CSMD1_uc003wqe.2_Missense_Mutation_p.G805S	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1649	Extracellular (Potential).|CUB 10.					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)		CATATTTGACCAGCTGTGTAA	0.388													6	21	---	---	---	---	PASS
CSMD1	64478	broad.mit.edu	37	8	3063085	3063085	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:3063085G>A	uc011kwk.1	-	31	5318	c.4928C>T	c.(4927-4929)CCC>CTC	p.P1643L	CSMD1_uc011kwj.1_Missense_Mutation_p.P1035L|CSMD1_uc003wqe.2_Missense_Mutation_p.P799L	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	1643	Extracellular (Potential).|CUB 10.					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)		GTAATTATGGGGGTAGTTTGG	0.408													10	14	---	---	---	---	PASS
CSMD1	64478	broad.mit.edu	37	8	3263750	3263750	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:3263750G>A	uc011kwk.1	-						CSMD1_uc011kwj.1_Intron	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	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)		AATGCTGAAAGAAAAAGAAGA	0.343													10	17	---	---	---	---	PASS
CSMD1	64478	broad.mit.edu	37	8	3267122	3267122	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:3267122C>T	uc011kwk.1	-	13	1960	c.1570G>A	c.(1570-1572)GAA>AAA	p.E524K	CSMD1_uc011kwj.1_5'UTR	NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	524	Extracellular (Potential).					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)		CCTCCCTTTTCAATTTCTGAA	0.443													5	12	---	---	---	---	PASS
CSMD1	64478	broad.mit.edu	37	8	4495068	4495068	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:4495068C>T	uc011kwk.1	-	2	488	c.98G>A	c.(97-99)GGA>GAA	p.G33E		NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	CUB and Sushi multiple domains 1 precursor	33	Extracellular (Potential).|CUB 1.					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)		GACTAAGCCTCCACAGTTCTG	0.443													16	43	---	---	---	---	PASS
AGPAT5	55326	broad.mit.edu	37	8	6612607	6612607	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:6612607C>T	uc003wqo.2	+	7	1093	c.781C>T	c.(781-783)CAC>TAC	p.H261Y	AGPAT5_uc011kwm.1_Silent_p.F85F	NM_018361	NP_060831	Q9NUQ2	PLCE_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 5	261					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)		AATTCATATTCACATTGATCG	0.299													16	25	---	---	---	---	PASS
DEFB4A	1673	broad.mit.edu	37	8	7752264	7752264	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:7752264C>T	uc003wsd.2	+	1	66	c.30C>T	c.(28-30)TTC>TTT	p.F10F		NM_004942	NP_004933	O15263	DFB4A_HUMAN	defensin, beta 4 precursor	10					chemotaxis|defense response to bacterium|G-protein coupled receptor protein signaling pathway|immune response	extracellular region					0						TCTTCTCGTTCCTCTTCATAT	0.517													17	83	---	---	---	---	PASS
RP1L1	94137	broad.mit.edu	37	8	10465665	10465665	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:10465665C>T	uc003wtc.2	-	4	6172	c.5943G>A	c.(5941-5943)GAG>GAA	p.E1981E		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1981					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		CCACTTCAACCTCCAGGGCCT	0.587													59	127	---	---	---	---	PASS
RP1L1	94137	broad.mit.edu	37	8	10466654	10466654	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:10466654C>T	uc003wtc.2	-	4	5183	c.4954G>A	c.(4954-4956)GAG>AAG	p.E1652K		NM_178857	NP_849188	Q8IWN7	RP1L1_HUMAN	retinitis pigmentosa 1-like 1	1652					intracellular signal transduction					ovary(4)|breast(3)|central_nervous_system(1)	8				COAD - Colon adenocarcinoma(149;0.0811)		TCCTCCCCCTCCGCCTCCTCG	0.662													14	17	---	---	---	---	PASS
C8orf74	203076	broad.mit.edu	37	8	10557809	10557809	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:10557809A>C	uc003wtd.1	+	4	742	c.713A>C	c.(712-714)CAG>CCG	p.Q238P	C8orf74_uc003wte.1_RNA	NM_001040032	NP_001035121	Q6P047	CH074_HUMAN	hypothetical protein LOC203076	238											0				COAD - Colon adenocarcinoma(149;0.0811)		GAGCTGCTGCAGCGCCAGATC	0.607													10	36	---	---	---	---	PASS
FGF20	26281	broad.mit.edu	37	8	16850674	16850674	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:16850674G>A	uc003wxc.1	-	3	676	c.543C>T	c.(541-543)TCC>TCT	p.S181S	FGF20_uc010lsv.1_RNA|FGF20_uc010lsw.1_3'UTR	NM_019851	NP_062825	Q9NP95	FGF20_HUMAN	fibroblast growth factor 20	181					cell-cell signaling|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway	extracellular region|soluble fraction	growth factor activity			lung(1)	1				Colorectal(111;0.0511)|COAD - Colon adenocarcinoma(73;0.207)		GATGCCTCTTGGACCTGGCGC	0.428													20	63	---	---	---	---	PASS
PDGFRL	5157	broad.mit.edu	37	8	17486125	17486125	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:17486125C>T	uc003wxr.2	+	4	696	c.635C>T	c.(634-636)CCA>CTA	p.P212L		NM_006207	NP_006198	Q15198	PGFRL_HUMAN	platelet-derived growth factor receptor-like	212						extracellular region	platelet activating factor receptor activity|platelet-derived growth factor beta-receptor activity				0				Colorectal(111;0.0752)		AGGGAATTCCCAGCCAAGGAG	0.537													12	34	---	---	---	---	PASS
PCM1	5108	broad.mit.edu	37	8	17794743	17794743	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:17794743C>T	uc003wyi.3	+	4	619	c.197C>T	c.(196-198)CCG>CTG	p.P66L	PCM1_uc011kyh.1_Missense_Mutation_p.P66L|PCM1_uc003wyj.3_Missense_Mutation_p.P66L|PCM1_uc003wyg.2_Missense_Mutation_p.P66L|PCM1_uc003wyh.2_Missense_Mutation_p.P66L|PCM1_uc010lta.1_Missense_Mutation_p.P66L	NM_006197	NP_006188	Q15154	PCM1_HUMAN	pericentriolar material 1	66					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)		GATATTTCTCCGGAGTCGTCA	0.428			T	RET|JAK2	papillary thyroid|CML|MPD								16	20	---	---	---	---	PASS
PSD3	23362	broad.mit.edu	37	8	18413869	18413869	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:18413869G>A	uc003wza.2	-						PSD3_uc003wyx.3_Intron|PSD3_uc003wyy.2_Intron|PSD3_uc003wyz.2_Intron	NM_015310	NP_056125	Q9NYI0	PSD3_HUMAN	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)		CCTCCTGCAGGAAATCATGAT	0.433													34	46	---	---	---	---	PASS
SH2D4A	63898	broad.mit.edu	37	8	19252082	19252082	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:19252082G>T	uc003wzb.2	+	10	1630	c.1294G>T	c.(1294-1296)GGG>TGG	p.G432W	SH2D4A_uc011kym.1_Missense_Mutation_p.G387W|SH2D4A_uc003wzc.2_Missense_Mutation_p.G432W	NM_022071	NP_071354	Q9H788	SH24A_HUMAN	SH2 domain containing 4A	432	SH2.					cytoplasm|nucleus	protein binding				0				Colorectal(111;0.0732)		CACTTCCCTGGGGAAGGAGCT	0.537													5	80	---	---	---	---	PASS
LPL	4023	broad.mit.edu	37	8	19810842	19810842	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:19810842G>A	uc003wzk.3	+	4	821	c.451G>A	c.(451-453)GAC>AAC	p.D151N		NM_000237	NP_000228	P06858	LIPL_HUMAN	lipoprotein lipase precursor	151					fatty acid biosynthetic process|lipoprotein metabolic process|phospholipid metabolic process|positive regulation of cholesterol storage|positive regulation of sequestering of triglyceride|triglyceride catabolic process|triglyceride homeostasis|very-low-density lipoprotein particle remodeling	anchored to membrane|chylomicron|plasma membrane|very-low-density lipoprotein particle	heparin binding|lipoprotein lipase activity|phospholipase activity|receptor binding|triglyceride lipase activity			ovary(1)|central_nervous_system(1)|pancreas(1)	3				Colorectal(111;0.0577)|COAD - Colon adenocarcinoma(73;0.216)	Clofibrate(DB00636)|Gemfibrozil(DB01241)|Orlistat(DB01083)	CTACCCTCTGGACAATGTCCA	0.383													27	31	---	---	---	---	PASS
SORBS3	10174	broad.mit.edu	37	8	22414361	22414361	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:22414361G>A	uc003xbv.2	+	4	694	c.354G>A	c.(352-354)TGG>TGA	p.W118*	SORBS3_uc011kzk.1_RNA	NM_005775	NP_005766	O60504	VINEX_HUMAN	sorbin and SH3 domain containing 3 isoform 1	118	SoHo.				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)		ACAAGCGCTGGGTCAAGTACG	0.657													13	29	---	---	---	---	PASS
SORBS3	10174	broad.mit.edu	37	8	22414429	22414429	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:22414429C>T	uc003xbv.2	+						SORBS3_uc011kzk.1_Intron	NM_005775	NP_005766	O60504	VINEX_HUMAN	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)		TCCGTGAGTCCAGGGCTGGGG	0.632													13	8	---	---	---	---	PASS
KIAA1967	57805	broad.mit.edu	37	8	22464806	22464806	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:22464806C>T	uc003xch.2	+	6	592	c.455C>T	c.(454-456)CCT>CTT	p.P152L	KIAA1967_uc003xci.2_Missense_Mutation_p.P152L|KIAA1967_uc003xcj.1_5'UTR	NM_199205	NP_954675	Q8N163	K1967_HUMAN	p30 DBC protein	152					apoptosis|positive regulation of apoptosis	mitochondrial matrix|nucleus	enzyme binding|enzyme inhibitor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(55;0.0421)|Breast(100;0.102)|all_epithelial(46;0.142)		BRCA - Breast invasive adenocarcinoma(99;0.00593)|Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		ATCTTCCAGCCTCACCGGATT	0.552													16	41	---	---	---	---	PASS
KIAA1967	57805	broad.mit.edu	37	8	22472971	22472971	+	Silent	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:22472971G>T	uc003xch.2	+	12	1376	c.1239G>T	c.(1237-1239)CCG>CCT	p.P413P	KIAA1967_uc003xci.2_Silent_p.P413P|KIAA1967_uc003xcj.1_Silent_p.P82P	NM_199205	NP_954675	Q8N163	K1967_HUMAN	p30 DBC protein	413					apoptosis|positive regulation of apoptosis	mitochondrial matrix|nucleus	enzyme binding|enzyme inhibitor activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(55;0.0421)|Breast(100;0.102)|all_epithelial(46;0.142)		BRCA - Breast invasive adenocarcinoma(99;0.00593)|Colorectal(74;0.0157)|COAD - Colon adenocarcinoma(73;0.064)		ACCTGCAGCCGGGACCCCCCC	0.582													4	75	---	---	---	---	PASS
ADAM7	8756	broad.mit.edu	37	8	24344734	24344734	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:24344734G>A	uc003xeb.2	+	11	1108	c.995G>A	c.(994-996)AGA>AAA	p.R332K	ADAM7_uc003xec.2_Missense_Mutation_p.R104K	NM_003817	NP_003808	Q9H2U9	ADAM7_HUMAN	a disintegrin and metalloproteinase domain 7	332	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)		ATTGCAAACAGAATGGCACAT	0.353													8	44	---	---	---	---	PASS
NEFL	4747	broad.mit.edu	37	8	24811165	24811165	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:24811165G>A	uc003xee.2	-	3	1416	c.1314C>T	c.(1312-1314)TCC>TCT	p.S438S		NM_006158	NP_006149	P07196	NFL_HUMAN	neurofilament, light polypeptide 68kDa	438	Tail.|Tail, subdomain A.				anterograde axon cargo transport|axon transport of mitochondrion|neurofilament bundle assembly|retrograde axon cargo transport|synaptic transmission	cytosol|neurofilament	identical protein binding|protein C-terminus binding|structural constituent of cytoskeleton			ovary(1)|central_nervous_system(1)	2		Ovarian(32;0.00965)|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)		AGGACGGGAAGGAGCGGGTGG	0.582													11	37	---	---	---	---	PASS
DOCK5	80005	broad.mit.edu	37	8	25234813	25234813	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:25234813C>T	uc003xeg.2	+						PPP2R2A_uc003xek.2_Intron|DOCK5_uc003xei.2_Intron|DOCK5_uc003xej.2_Intron	NM_024940	NP_079216	Q9H7D0	DOCK5_HUMAN	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)		GCTTTTCTTCCTTTTCAGTGG	0.363													13	32	---	---	---	---	PASS
DOCK5	80005	broad.mit.edu	37	8	25246721	25246721	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:25246721G>A	uc003xeg.2	+	41	4383	c.4246G>A	c.(4246-4248)GAA>AAA	p.E1416K	PPP2R2A_uc003xek.2_Missense_Mutation_p.E205K|DOCK5_uc003xei.2_Missense_Mutation_p.E986K|DOCK5_uc003xej.2_RNA	NM_024940	NP_079216	Q9H7D0	DOCK5_HUMAN	dedicator of cytokinesis 5	1416	DHR-2.					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)		GCCTCCTGGGGAAGACATCAA	0.567													23	63	---	---	---	---	PASS
PNMA2	10687	broad.mit.edu	37	8	26365669	26365669	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:26365669T>A	uc003xez.2	-	3	1373	c.603A>T	c.(601-603)GAA>GAT	p.E201D		NM_007257	NP_009188	Q9UL42	PNMA2_HUMAN	paraneoplastic antigen MA2	201					apoptosis	nucleolus	protein binding				0		all_cancers(63;0.109)|Ovarian(32;2.61e-05)|all_epithelial(46;0.105)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0196)|Epithelial(17;3.13e-11)|Colorectal(74;0.123)		accttttcttttctgcctctg	0.000													22	31	---	---	---	---	PASS
TRIM35	23087	broad.mit.edu	37	8	27151768	27151768	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:27151768G>A	uc003xfl.1	-	3	673	c.591C>T	c.(589-591)TTC>TTT	p.F197F	TRIM35_uc010lup.1_Silent_p.F165F|TRIM35_uc003xfm.1_RNA	NM_171982	NP_741983	Q9UPQ4	TRI35_HUMAN	tripartite motif-containing 35 isoform 2	197					apoptosis|induction of apoptosis|negative regulation of mitotic cell cycle	cytoplasm|nucleus	zinc ion binding				0		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0213)|Epithelial(17;9.34e-10)|Colorectal(74;0.141)		CCACTCTCAAGAACTCGCGAA	0.577													14	43	---	---	---	---	PASS
SCARA3	51435	broad.mit.edu	37	8	27516678	27516678	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:27516678C>T	uc003xga.1	+	5	1132	c.991C>T	c.(991-993)CAT>TAT	p.H331Y	SCARA3_uc003xgb.1_Missense_Mutation_p.H331Y	NM_016240	NP_057324	Q6AZY7	SCAR3_HUMAN	scavenger receptor class A, member 3 isoform 1	331	Extracellular (Potential).				response to oxidative stress|UV protection	collagen|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	scavenger receptor activity			skin(2)|ovary(1)|breast(1)	4		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0219)|Colorectal(74;0.148)		TCTTCAGTACCATACCCACTA	0.522													33	52	---	---	---	---	PASS
ELP3	55140	broad.mit.edu	37	8	27989846	27989846	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:27989846C>T	uc003xgo.3	+	9	979	c.831C>T	c.(829-831)TCC>TCT	p.S277S	ELP3_uc003xgn.3_Silent_p.S262S|ELP3_uc011laq.1_Silent_p.S205S|ELP3_uc011lar.1_Silent_p.S185S|ELP3_uc011las.1_Silent_p.S158S|ELP3_uc011lat.1_Silent_p.S158S	NM_018091	NP_060561	Q9H9T3	ELP3_HUMAN	elongation protein 3 homolog	277					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)		CCAAAGATTCCGGTTTTAAAG	0.463													20	25	---	---	---	---	PASS
DUSP4	1846	broad.mit.edu	37	8	29202988	29202988	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:29202988C>T	uc003xhm.2	-						DUSP4_uc003xhl.2_Missense_Mutation_p.R20K	NM_001394	NP_001385	Q13115	DUS4_HUMAN	dual specificity phosphatase 4 isoform 1						endoderm formation|inactivation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	nucleoplasm	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/threonine phosphatase activity			lung(1)	1				KIRC - Kidney renal clear cell carcinoma(542;0.094)|Kidney(114;0.113)		CCCAGTCCTCCTGGGCGATCT	0.557													14	34	---	---	---	---	PASS
DUSP4	1846	broad.mit.edu	37	8	29207352	29207352	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:29207352C>T	uc003xhm.2	-						DUSP4_uc003xhl.2_5'Flank	NM_001394	NP_001385	Q13115	DUS4_HUMAN	dual specificity phosphatase 4 isoform 1						endoderm formation|inactivation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	nucleoplasm	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/threonine phosphatase activity			lung(1)	1				KIRC - Kidney renal clear cell carcinoma(542;0.094)|Kidney(114;0.113)		GCGCCCGGAGCCCTCGTTTAC	0.687													4	2	---	---	---	---	PASS
DUSP4	1846	broad.mit.edu	37	8	29207353	29207353	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:29207353C>T	uc003xhm.2	-						DUSP4_uc003xhl.2_5'Flank	NM_001394	NP_001385	Q13115	DUS4_HUMAN	dual specificity phosphatase 4 isoform 1						endoderm formation|inactivation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|nerve growth factor receptor signaling pathway|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	nucleoplasm	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity|protein tyrosine/threonine phosphatase activity			lung(1)	1				KIRC - Kidney renal clear cell carcinoma(542;0.094)|Kidney(114;0.113)		CGCCCGGAGCCCTCGTTTACC	0.687													4	2	---	---	---	---	PASS
TMEM66	51669	broad.mit.edu	37	8	29927250	29927250	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:29927250G>T	uc003xhs.2	-	3	792	c.608C>A	c.(607-609)CCG>CAG	p.P203Q	TMEM66_uc003xht.2_Missense_Mutation_p.P203Q|TMEM66_uc003xhu.2_Missense_Mutation_p.P167Q|TMEM66_uc003xhv.2_Missense_Mutation_p.P31Q	NM_016127	NP_057211	Q96BY9	TMM66_HUMAN	transmembrane protein 66 precursor	203						integral to membrane					0				KIRC - Kidney renal clear cell carcinoma(542;0.0993)|Kidney(114;0.119)		CTCAGAGTACGGTGGAGGAGA	0.483													5	98	---	---	---	---	PASS
TEX15	56154	broad.mit.edu	37	8	30695230	30695230	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:30695230C>T	uc003xil.2	-	3	7421	c.7421G>A	c.(7420-7422)GGG>GAG	p.G2474E		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	2474										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		CAAAAGCGTCCCATGGTCTGG	0.393													51	76	---	---	---	---	PASS
TEX15	56154	broad.mit.edu	37	8	30695231	30695231	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:30695231C>T	uc003xil.2	-	3	7420	c.7420G>A	c.(7420-7422)GGG>AGG	p.G2474R		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	2474										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		AAAAGCGTCCCATGGTCTGGT	0.398													53	77	---	---	---	---	PASS
TEX15	56154	broad.mit.edu	37	8	30703109	30703109	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:30703109G>A	uc003xil.2	-	1	3425	c.3425C>T	c.(3424-3426)TCC>TTC	p.S1142F		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	1142	Ser-rich.									ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		TGTACTTTGGGATGTGGAGGA	0.403													19	36	---	---	---	---	PASS
TEX15	56154	broad.mit.edu	37	8	30705259	30705259	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:30705259C>T	uc003xil.2	-	1	1275	c.1275G>A	c.(1273-1275)AGG>AGA	p.R425R		NM_031271	NP_112561	Q9BXT5	TEX15_HUMAN	testis expressed 15	425										ovary(3)|upper_aerodigestive_tract(2)|skin(2)	7				KIRC - Kidney renal clear cell carcinoma(542;0.0918)|Kidney(114;0.111)		TTTCATTTTTCCTATGGACAC	0.333													26	72	---	---	---	---	PASS
NRG1	3084	broad.mit.edu	37	8	32621468	32621468	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:32621468T>A	uc003xiv.2	+	12	1988	c.1471T>A	c.(1471-1473)TTT>ATT	p.F491I	NRG1_uc010lvo.2_3'UTR|NRG1_uc003xiu.2_Missense_Mutation_p.F496I|NRG1_uc003xiw.2_Missense_Mutation_p.F488I|NRG1_uc003xit.2_3'UTR|NRG1_uc010lvr.2_Missense_Mutation_p.F233I|NRG1_uc010lvs.2_Missense_Mutation_p.F233I|NRG1_uc010lvp.2_Missense_Mutation_p.F445I|NRG1_uc010lvq.2_Missense_Mutation_p.F428I|NRG1_uc011lbg.1_3'UTR|NRG1_uc011lbh.1_Missense_Mutation_p.F334I|NRG1_uc003xja.2_Missense_Mutation_p.F302I	NM_013964	NP_039258	Q02297	NRG1_HUMAN	neuregulin 1 isoform HRG-alpha	491	Cytoplasmic (Potential).				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)		GGAGAAGAAGTTTGACCATCA	0.567													32	48	---	---	---	---	PASS
FUT10	84750	broad.mit.edu	37	8	33310821	33310821	+	Silent	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:33310821A>G	uc003xje.2	-	3	645	c.289T>C	c.(289-291)TTA>CTA	p.L97L	FUT10_uc003xjc.2_Silent_p.L104L|FUT10_uc003xjd.2_Silent_p.L69L|FUT10_uc011lbi.1_Silent_p.L147L|FUT10_uc003xjf.2_Missense_Mutation_p.V22A|FUT10_uc003xjg.2_Silent_p.L69L|FUT10_uc003xjh.2_Silent_p.L97L|FUT10_uc003xji.1_Silent_p.L97L	NM_032664	NP_116053	Q6P4F1	FUT10_HUMAN	fucosyltransferase 10	97	Lumenal (Potential).				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)		CATTGGCCTAACCTCCCAGTC	0.488													19	45	---	---	---	---	PASS
UNC5D	137970	broad.mit.edu	37	8	35406913	35406913	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:35406913C>T	uc003xjr.1	+	2	535	c.207C>T	c.(205-207)AAC>AAT	p.N69N	UNC5D_uc003xjs.1_Silent_p.N64N	NM_080872	NP_543148	Q6UXZ4	UNC5D_HUMAN	unc-5 homolog D precursor	69	Extracellular (Potential).|Ig-like.				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)		TCAAGAGCAACCCTATTGCAC	0.512													16	43	---	---	---	---	PASS
KCNU1	157855	broad.mit.edu	37	8	36673128	36673128	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:36673128C>T	uc010lvw.2	+	9	1005	c.918C>T	c.(916-918)AAC>AAT	p.N306N	KCNU1_uc003xjw.2_RNA	NM_001031836	NP_001027006	A8MYU2	KCNU1_HUMAN	potassium channel, subfamily U, member 1	306	Helical; Name=Segment S6; (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)		TATTTGCGAACTATATACCTG	0.313													14	34	---	---	---	---	PASS
GPR124	25960	broad.mit.edu	37	8	37698370	37698370	+	Intron	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:37698370G>T	uc003xkj.2	+						GPR124_uc010lvy.2_Intron	NM_032777	NP_116166	Q96PE1	GP124_HUMAN	G protein-coupled receptor 124 precursor						central nervous system development|endothelial cell migration|neuropeptide signaling pathway|regulation of angiogenesis|regulation of chemotaxis|sprouting angiogenesis	integral to membrane|plasma membrane	G-protein coupled receptor activity			large_intestine(2)|ovary(2)|skin(1)	5			BRCA - Breast invasive adenocarcinoma(5;2.75e-24)|LUSC - Lung squamous cell carcinoma(8;3.5e-10)			AGCCCCTAGTGAGCACCCCTC	0.582													8	12	---	---	---	---	PASS
GOT1L1	137362	broad.mit.edu	37	8	37795246	37795246	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:37795246C>T	uc011lbj.1	-	3	419	c.319G>A	c.(319-321)GGT>AGT	p.G107S		NM_152413	NP_689626	Q8NHS2	AATC2_HUMAN	glutamic-oxaloacetic transaminase 1-like 1	107					biosynthetic process|cellular amino acid metabolic process	cytoplasm	pyridoxal phosphate binding|transaminase activity			ovary(1)	1	Colorectal(12;0.00627)	Lung NSC(58;0.118)|all_lung(54;0.195)	LUSC - Lung squamous cell carcinoma(8;1.37e-11)			CCACTGTCACCAACAGTGTGT	0.338													7	18	---	---	---	---	PASS
LSM1	27257	broad.mit.edu	37	8	38029512	38029512	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:38029512A>G	uc003xkw.2	-	2	274	c.86T>C	c.(85-87)ATA>ACA	p.I29T	LSM1_uc003xkx.2_RNA	NM_014462	NP_055277	O15116	LSM1_HUMAN	Lsm1 protein	29					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|histone mRNA catabolic process|mRNA processing|RNA splicing, via transesterification reactions	cytosol|nucleus|ribonucleoprotein complex	protein binding|RNA binding				0	Colorectal(12;0.000442)					TAAAAAGCCTATAAGTGTCCT	0.343											OREG0018720	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	18	37	---	---	---	---	PASS
ADAM18	8749	broad.mit.edu	37	8	39496021	39496021	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:39496021C>T	uc003xni.2	+	10	865	c.865C>T	c.(865-867)CCT>TCT	p.P289S	ADAM18_uc010lww.2_RNA|ADAM18_uc010lwx.2_Missense_Mutation_p.P265S	NM_014237	NP_055052	Q9Y3Q7	ADA18_HUMAN	a disintegrin and metalloprotease domain 18	289	Peptidase M12B.|Extracellular (Potential).				cell differentiation|multicellular organismal development|proteolysis|spermatogenesis	integral to membrane|membrane fraction	metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)|kidney(1)|skin(1)	6		all_cancers(7;1.32e-05)|all_epithelial(6;3.08e-10)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00769)|Breast(189;0.0112)	LUSC - Lung squamous cell carcinoma(45;0.000199)			AGCAACATTTCCTGGCACTGT	0.274													4	15	---	---	---	---	PASS
ADAM18	8749	broad.mit.edu	37	8	39496022	39496022	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:39496022C>T	uc003xni.2	+	10	866	c.866C>T	c.(865-867)CCT>CTT	p.P289L	ADAM18_uc010lww.2_RNA|ADAM18_uc010lwx.2_Missense_Mutation_p.P265L	NM_014237	NP_055052	Q9Y3Q7	ADA18_HUMAN	a disintegrin and metalloprotease domain 18	289	Peptidase M12B.|Extracellular (Potential).				cell differentiation|multicellular organismal development|proteolysis|spermatogenesis	integral to membrane|membrane fraction	metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)|kidney(1)|skin(1)	6		all_cancers(7;1.32e-05)|all_epithelial(6;3.08e-10)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00769)|Breast(189;0.0112)	LUSC - Lung squamous cell carcinoma(45;0.000199)			GCAACATTTCCTGGCACTGTA	0.279													4	16	---	---	---	---	PASS
ADAM18	8749	broad.mit.edu	37	8	39496065	39496065	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:39496065G>A	uc003xni.2	+	10	909	c.909G>A	c.(907-909)ATG>ATA	p.M303I	ADAM18_uc010lww.2_RNA|ADAM18_uc010lwx.2_Missense_Mutation_p.M279I	NM_014237	NP_055052	Q9Y3Q7	ADA18_HUMAN	a disintegrin and metalloprotease domain 18	303	Peptidase M12B.|Extracellular (Potential).				cell differentiation|multicellular organismal development|proteolysis|spermatogenesis	integral to membrane|membrane fraction	metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)|kidney(1)|skin(1)	6		all_cancers(7;1.32e-05)|all_epithelial(6;3.08e-10)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00769)|Breast(189;0.0112)	LUSC - Lung squamous cell carcinoma(45;0.000199)			GTATTGCTATGGTATGTAATT	0.269													9	16	---	---	---	---	PASS
ADAM18	8749	broad.mit.edu	37	8	39521342	39521342	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:39521342A>C	uc003xni.2	+	13	1259	c.1259A>C	c.(1258-1260)TAT>TCT	p.Y420S	ADAM18_uc010lww.2_RNA|ADAM18_uc010lwx.2_Missense_Mutation_p.Y396S	NM_014237	NP_055052	Q9Y3Q7	ADA18_HUMAN	a disintegrin and metalloprotease domain 18	420	Disintegrin.|Extracellular (Potential).				cell differentiation|multicellular organismal development|proteolysis|spermatogenesis	integral to membrane|membrane fraction	metalloendopeptidase activity|zinc ion binding			central_nervous_system(2)|upper_aerodigestive_tract(1)|ovary(1)|kidney(1)|skin(1)	6		all_cancers(7;1.32e-05)|all_epithelial(6;3.08e-10)|all_lung(54;0.00187)|Hepatocellular(245;0.00745)|Lung NSC(58;0.00769)|Breast(189;0.0112)	LUSC - Lung squamous cell carcinoma(45;0.000199)			TGCTGTGATTATAACACATGT	0.308													16	27	---	---	---	---	PASS
IDO1	3620	broad.mit.edu	37	8	39782800	39782800	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:39782800C>T	uc003xnm.2	+	9	880	c.766C>T	c.(766-768)CCA>TCA	p.P256S	IDO1_uc003xnn.2_RNA	NM_002164	NP_002155	P14902	I23O1_HUMAN	indoleamine 2,3-dioxygenase 1	256					female pregnancy|tryptophan catabolic process	cytosol	electron carrier activity|heme binding|indoleamine 2,3-dioxygenase activity|tryptophan 2,3-dioxygenase activity			central_nervous_system(2)	2					L-Tryptophan(DB00150)	CTGGGAAGACCCAAAGGAGTT	0.507													11	17	---	---	---	---	PASS
IDO2	169355	broad.mit.edu	37	8	39845390	39845390	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:39845390G>A	uc010lwy.1	+	7	731	c.489G>A	c.(487-489)GGG>GGA	p.G163G	IDO2_uc003xno.1_RNA|IDO2_uc010lwz.1_Intron|IDO2_uc003xnp.1_5'UTR	NM_194294	NP_919270	Q6ZQW0	I23O2_HUMAN	indoleamine-pyrrole 2,3 dioxygenase-like 1	150					tryptophan catabolic process to kynurenine	cytosol	heme binding|indoleamine 2,3-dioxygenase activity|tryptophan 2,3-dioxygenase activity			ovary(2)	2						CCTTCCCAAGGAACCTGGAGA	0.512													7	17	---	---	---	---	PASS
IDO2	169355	broad.mit.edu	37	8	39845422	39845422	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:39845422G>A	uc010lwy.1	+	7	763	c.521G>A	c.(520-522)GGA>GAA	p.G174E	IDO2_uc003xno.1_RNA|IDO2_uc010lwz.1_Intron|IDO2_uc003xnp.1_5'UTR	NM_194294	NP_919270	Q6ZQW0	I23O2_HUMAN	indoleamine-pyrrole 2,3 dioxygenase-like 1	161					tryptophan catabolic process to kynurenine	cytosol	heme binding|indoleamine 2,3-dioxygenase activity|tryptophan 2,3-dioxygenase activity			ovary(2)	2						TTTCCTGGGGGAGAGAGCCTG	0.478													14	26	---	---	---	---	PASS
ANK1	286	broad.mit.edu	37	8	41545666	41545666	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:41545666C>T	uc003xok.2	-						NKX6-3_uc010lxa.1_Intron|ANK1_uc003xoh.2_Intron|ANK1_uc003xoi.2_Intron|ANK1_uc003xoj.2_Intron|ANK1_uc003xol.2_Intron|ANK1_uc003xom.2_Intron	NM_020476	NP_065209	P16157	ANK1_HUMAN	ankyrin 1 isoform 1						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)			CCCCAATTCCCCACTCACCTG	0.517													85	90	---	---	---	---	PASS
MYST3	7994	broad.mit.edu	37	8	41800488	41800488	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:41800488G>A	uc010lxb.2	-	15	2803	c.2259C>T	c.(2257-2259)ATC>ATT	p.I753I	MYST3_uc010lxc.2_Silent_p.I753I|MYST3_uc003xon.3_Silent_p.I753I|MYST3_uc010lxd.2_Silent_p.I753I	NM_001099412	NP_001092882	Q92794	MYST3_HUMAN	MYST histone acetyltransferase (monocytic	753	Mediates interaction with BRPF1, required for histone H3 acetyltransferase activity.|Catalytic.				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)			TGTGATCCTGGATAAGTTTTT	0.418													9	51	---	---	---	---	PASS
AP3M2	10947	broad.mit.edu	37	8	42019934	42019934	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:42019934C>T	uc003xop.2	+	5	872	c.581C>T	c.(580-582)TCA>TTA	p.S194L	AP3M2_uc003xoo.2_Missense_Mutation_p.S194L|AP3M2_uc010lxe.2_RNA|AP3M2_uc003xoq.1_Missense_Mutation_p.S79L|AP3M2_uc003xor.1_Missense_Mutation_p.S194L	NM_001134296	NP_001127768	P53677	AP3M2_HUMAN	adaptor-related protein complex 3, mu 2 subunit	194	MHD.				intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|Golgi apparatus					0	all_cancers(6;8.14e-25)|all_epithelial(6;2.41e-27)|all_lung(13;5.09e-13)|Lung NSC(13;8.38e-12)|Ovarian(28;0.00438)|Prostate(17;0.0119)|Colorectal(14;0.0221)|Lung SC(25;0.211)	all_lung(54;0.000434)|Lung NSC(58;0.00161)|Hepatocellular(245;0.0524)|Esophageal squamous(32;0.0954)|Renal(179;0.0983)	BRCA - Breast invasive adenocarcinoma(8;5.23e-10)|Colorectal(10;0.00165)|OV - Ovarian serous cystadenocarcinoma(14;0.00346)|Lung(22;0.00467)|COAD - Colon adenocarcinoma(11;0.0171)|LUSC - Lung squamous cell carcinoma(45;0.024)			ATTGATAAATCAGGTAGGTGC	0.358													85	138	---	---	---	---	PASS
POLB	5423	broad.mit.edu	37	8	42214872	42214872	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:42214872C>T	uc003xoz.1	+	9	625	c.512C>T	c.(511-513)TCT>TTT	p.S171F	POLB_uc003xpa.1_Missense_Mutation_p.S171F|POLB_uc011lcs.1_Missense_Mutation_p.S17F	NM_002690	NP_002681	P06746	DPOLB_HUMAN	DNA-directed DNA polymerase beta	171					DNA-dependent DNA replication	cytoplasm|nucleoplasm|spindle microtubule	DNA-(apurinic or apyrimidinic site) lyase activity|DNA-directed DNA polymerase activity|enzyme binding|metal ion binding|microtubule binding			ovary(1)|breast(1)	2	all_cancers(6;1.42e-24)|all_epithelial(6;1.02e-25)|all_lung(13;2.58e-12)|Lung NSC(13;4.24e-11)|Ovarian(28;0.00769)|Prostate(17;0.0119)|Colorectal(14;0.1)|Lung SC(25;0.211)	all_lung(54;0.00671)|Lung NSC(58;0.0184)|Esophageal squamous(32;0.131)|Hepatocellular(245;0.133)|Renal(179;0.151)	BRCA - Breast invasive adenocarcinoma(8;3.18e-11)|Lung(22;0.00467)|OV - Ovarian serous cystadenocarcinoma(14;0.00523)|LUSC - Lung squamous cell carcinoma(45;0.024)		Cytarabine(DB00987)	AAAGTGGATTCTGAATACATT	0.338								DNA_polymerases_(catalytic_subunits)					6	25	---	---	---	---	PASS
HGSNAT	138050	broad.mit.edu	37	8	43052807	43052807	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:43052807C>T	uc003xpx.3	+							NM_152419	NP_689632	Q68CP4	HGNAT_HUMAN	heparan-alpha-glucosaminide N-acetyltransferase						lysosomal transport|protein oligomerization	integral to membrane|lysosomal membrane	heparan-alpha-glucosaminide N-acetyltransferase activity				0	Prostate(17;0.0119)|Ovarian(28;0.0172)|Lung SC(25;0.184)	all_cancers(86;0.000223)|all_epithelial(80;1.61e-07)|all_lung(54;0.00021)|Lung NSC(58;0.000778)|Hepatocellular(245;0.0524)|Renal(179;0.0822)|Esophageal squamous(32;0.129)	Lung(22;0.0777)|LUSC - Lung squamous cell carcinoma(45;0.17)			TTCTCTTCCCCATTACAGGGG	0.343													18	58	---	---	---	---	PASS
KIAA0146	23514	broad.mit.edu	37	8	48353097	48353097	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:48353097C>T	uc003xqd.2	+	8	1099	c.1090C>T	c.(1090-1092)CCT>TCT	p.P364S	KIAA0146_uc011lcz.1_RNA|KIAA0146_uc011lda.1_Missense_Mutation_p.P53S|KIAA0146_uc011ldb.1_Missense_Mutation_p.P364S|KIAA0146_uc010lxs.2_5'UTR|KIAA0146_uc011ldc.1_Missense_Mutation_p.P294S|KIAA0146_uc011ldd.1_Missense_Mutation_p.P304S|KIAA0146_uc003xqe.2_5'UTR|KIAA0146_uc003xqf.2_RNA|KIAA0146_uc011lde.1_Missense_Mutation_p.P53S|KIAA0146_uc010lxt.2_Missense_Mutation_p.P53S	NM_001080394	NP_001073863	Q14159	K0146_HUMAN	hypothetical protein LOC23514	364											0		Lung NSC(58;0.175)				CCGGATCTTCCCTCCCTGGTG	0.517													13	20	---	---	---	---	PASS
C8orf22	492307	broad.mit.edu	37	8	49986642	49986642	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:49986642C>T	uc003xqq.3	+	3	263	c.80C>T	c.(79-81)TCT>TTT	p.S27F		NM_001007176	NP_001007177	Q8WWR9	PDPFL_HUMAN	hypothetical protein LOC492307	27											0		all_cancers(86;0.0452)|all_epithelial(80;0.000863)|Lung NSC(129;0.0019)|all_lung(136;0.00502)				TCAGTTAGTTCTTTAACTAGC	0.318													22	30	---	---	---	---	PASS
PXDNL	137902	broad.mit.edu	37	8	52321427	52321427	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:52321427G>A	uc003xqu.3	-	17	2858	c.2757C>T	c.(2755-2757)CTC>CTT	p.L919L	PXDNL_uc003xqt.3_RNA	NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	919					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)				CTGTCTTCAGGAGACCCCGAG	0.607													8	16	---	---	---	---	PASS
PXDNL	137902	broad.mit.edu	37	8	52366184	52366184	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:52366184C>T	uc003xqu.3	-	10	1245	c.1144G>A	c.(1144-1146)GGA>AGA	p.G382R		NM_144651	NP_653252	A1KZ92	PXDNL_HUMAN	peroxidasin homolog-like precursor	382	Ig-like C2-type 2.				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)				AAGTAAAGTCCACTGGACGTT	0.498													19	43	---	---	---	---	PASS
PCMTD1	115294	broad.mit.edu	37	8	52733211	52733211	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:52733211G>A	uc003xqx.3	-	6	1115	c.774C>T	c.(772-774)TTC>TTT	p.F258F	PCMTD1_uc011ldm.1_Silent_p.F128F|PCMTD1_uc003xqw.3_Silent_p.F258F|PCMTD1_uc011ldn.1_Silent_p.F70F|PCMTD1_uc010lya.2_Silent_p.F182F	NM_052937	NP_443169	Q96MG8	PCMD1_HUMAN	protein-L-isoaspartate (D-aspartate)	258						cytoplasm	protein-L-isoaspartate (D-aspartate) O-methyltransferase activity				0		Lung NSC(129;0.0795)|all_lung(136;0.144)				CATCATTTATGAAATTTCTAA	0.398													5	108	---	---	---	---	PASS
ST18	9705	broad.mit.edu	37	8	53049180	53049180	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:53049180G>A	uc003xqz.2	-	14	2426	c.2270C>T	c.(2269-2271)TCC>TTC	p.S757F	ST18_uc011ldq.1_Missense_Mutation_p.S404F|ST18_uc011ldr.1_Missense_Mutation_p.S722F|ST18_uc011lds.1_Missense_Mutation_p.S662F|ST18_uc003xra.2_Missense_Mutation_p.S757F	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18	757						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				AGCCATGAGGGATTTTAGAGT	0.478													8	11	---	---	---	---	PASS
ST18	9705	broad.mit.edu	37	8	53071573	53071573	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:53071573C>T	uc003xqz.2	-	10	1847	c.1691G>A	c.(1690-1692)GGT>GAT	p.G564D	ST18_uc011ldq.1_Missense_Mutation_p.G211D|ST18_uc011ldr.1_Missense_Mutation_p.G529D|ST18_uc011lds.1_Missense_Mutation_p.G469D|ST18_uc003xra.2_Missense_Mutation_p.G564D|ST18_uc003xrb.2_Missense_Mutation_p.G564D	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18	564						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				ACTACATTGACCGTAGCTATA	0.542													26	38	---	---	---	---	PASS
ST18	9705	broad.mit.edu	37	8	53073958	53073958	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:53073958C>T	uc003xqz.2	-	9	1727	c.1571G>A	c.(1570-1572)CGA>CAA	p.R524Q	ST18_uc011ldq.1_Missense_Mutation_p.R171Q|ST18_uc011ldr.1_Missense_Mutation_p.R489Q|ST18_uc011lds.1_Missense_Mutation_p.R429Q|ST18_uc003xra.2_Missense_Mutation_p.R524Q|ST18_uc003xrb.2_Missense_Mutation_p.R524Q	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18	524						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				TGGTGTTTTTCGTCCTTGCAC	0.438													29	42	---	---	---	---	PASS
ST18	9705	broad.mit.edu	37	8	53084599	53084599	+	Silent	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:53084599T>C	uc003xqz.2	-	5	978	c.822A>G	c.(820-822)TCA>TCG	p.S274S	ST18_uc011ldq.1_5'UTR|ST18_uc011ldr.1_Silent_p.S239S|ST18_uc011lds.1_Silent_p.S179S|ST18_uc003xra.2_Silent_p.S274S|ST18_uc003xrb.2_Silent_p.S274S	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18	274						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				CGTCAGGGAATGAGGGCTGGG	0.507													26	35	---	---	---	---	PASS
ATP6V1H	51606	broad.mit.edu	37	8	54714349	54714349	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:54714349G>A	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	Q9UI12	VATH_HUMAN	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)			TAAAAGGAAAGGGCACTCACC	0.388													13	15	---	---	---	---	PASS
RGS20	8601	broad.mit.edu	37	8	54791982	54791982	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:54791982C>T	uc003xrp.2	+	2	422	c.330C>T	c.(328-330)GCC>GCT	p.A110A	RGS20_uc003xrq.2_Intron|RGS20_uc010lye.2_Intron|RGS20_uc010lyf.2_Intron|RGS20_uc003xrr.2_5'Flank|RGS20_uc003xrs.2_5'Flank|RGS20_uc003xrt.2_5'Flank	NM_170587	NP_733466	O76081	RGS20_HUMAN	regulator of G-protein signaling 20 isoform a	110					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)			TGCTTCCCGCCCTGCCGGCCG	0.761													4	12	---	---	---	---	PASS
RP1	6101	broad.mit.edu	37	8	55540154	55540154	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:55540154G>A	uc003xsd.1	+	4	3860	c.3712G>A	c.(3712-3714)GGT>AGT	p.G1238S	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1238					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)			TTTGGATGGAGGTTGCTCTGC	0.438													36	53	---	---	---	---	PASS
RP1	6101	broad.mit.edu	37	8	55540733	55540733	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:55540733G>A	uc003xsd.1	+	4	4439	c.4291G>A	c.(4291-4293)GAA>AAA	p.E1431K	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1431					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)			GTTTCAGGATGAAAATGCATA	0.373													19	48	---	---	---	---	PASS
RP1	6101	broad.mit.edu	37	8	55541635	55541635	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:55541635C>T	uc003xsd.1	+	4	5341	c.5193C>T	c.(5191-5193)ATC>ATT	p.I1731I	RP1_uc011ldy.1_Intron	NM_006269	NP_006260	P56715	RP1_HUMAN	retinitis pigmentosa RP1 protein	1731					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)			ATAGCAGAATCCTCACAGACA	0.398													34	44	---	---	---	---	PASS
XKR4	114786	broad.mit.edu	37	8	56436231	56436231	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:56436231G>A	uc003xsf.2	+	3	1430	c.1398G>A	c.(1396-1398)TTG>TTA	p.L466L		NM_052898	NP_443130	Q5GH76	XKR4_HUMAN	XK, Kell blood group complex subunit-related	466	Helical; (Potential).					integral to membrane				pancreas(2)	2			Epithelial(17;0.000117)|all cancers(17;0.000836)			TGATCCTTTTGGAAAATACAG	0.473													17	44	---	---	---	---	PASS
PLAG1	5324	broad.mit.edu	37	8	57079013	57079013	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:57079013G>A	uc003xsq.3	-	3	1743	c.1292C>T	c.(1291-1293)CCC>CTC	p.P431L	PLAG1_uc003xsr.3_Missense_Mutation_p.P431L|PLAG1_uc010lyi.2_Missense_Mutation_p.P431L|PLAG1_uc010lyj.2_Missense_Mutation_p.P349L	NM_001114635	NP_001108107	Q6DJT9	PLAG1_HUMAN	pleiomorphic adenoma gene 1 isoform b	431	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)			AGGATTATAGGGAGGACCATT	0.453			T	TCEA1|LIFR|CTNNB1|CHCHD7	salivary adenoma								41	64	---	---	---	---	PASS
ASPH	444	broad.mit.edu	37	8	62430621	62430621	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:62430621G>A	uc003xuj.2	-	23	2231	c.1962C>T	c.(1960-1962)TTC>TTT	p.F654F	ASPH_uc011leg.1_Silent_p.F625F	NM_004318	NP_004309	Q12797	ASPH_HUMAN	aspartate beta-hydroxylase isoform a	654	Lumenal (Potential).				muscle contraction	integral to endoplasmic reticulum membrane	calcium ion binding|electron carrier activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptide-aspartate beta-dioxygenase activity|structural constituent of muscle			ovary(3)	3	Lung SC(2;0.153)	Lung NSC(129;0.0358)|all_lung(136;0.0654)|all_epithelial(80;0.101)			L-Aspartic Acid(DB00128)|Succinic acid(DB00139)	TTGTCTCGGGGAACTTTTCTA	0.398													49	78	---	---	---	---	PASS
ASPH	444	broad.mit.edu	37	8	62475376	62475376	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:62475376G>A	uc003xuj.2	-	18	1633	c.1364C>T	c.(1363-1365)TCC>TTC	p.S455F	ASPH_uc011leg.1_Missense_Mutation_p.S426F|ASPH_uc003xuo.2_Missense_Mutation_p.S436F	NM_004318	NP_004309	Q12797	ASPH_HUMAN	aspartate beta-hydroxylase isoform a	455	TPR 2.|Lumenal (Potential).				muscle contraction	integral to endoplasmic reticulum membrane	calcium ion binding|electron carrier activity|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|peptide-aspartate beta-dioxygenase activity|structural constituent of muscle			ovary(3)	3	Lung SC(2;0.153)	Lung NSC(129;0.0358)|all_lung(136;0.0654)|all_epithelial(80;0.101)			L-Aspartic Acid(DB00128)|Succinic acid(DB00139)	ATTTTTTAAGGAAGTATCATT	0.358													25	63	---	---	---	---	PASS
TRIM55	84675	broad.mit.edu	37	8	67047381	67047381	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:67047381G>A	uc003xvv.2	+	3	724	c.498G>A	c.(496-498)CAG>CAA	p.Q166Q	TRIM55_uc003xvu.2_Silent_p.Q166Q|TRIM55_uc003xvw.2_Silent_p.Q166Q|TRIM55_uc003xvx.2_Silent_p.Q166Q	NM_184085	NP_908973	Q9BYV6	TRI55_HUMAN	tripartite motif-containing 55 isoform 1	166						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)			ATGTGTTCCAGAGACAGAAGG	0.592													21	52	---	---	---	---	PASS
TRIM55	84675	broad.mit.edu	37	8	67064761	67064761	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:67064761C>T	uc003xvv.2	+	8	1361	c.1135C>T	c.(1135-1137)CTC>TTC	p.L379F	TRIM55_uc003xvu.2_Missense_Mutation_p.L379F|TRIM55_uc003xvw.2_Missense_Mutation_p.L379F|TRIM55_uc003xvx.2_Intron	NM_184085	NP_908973	Q9BYV6	TRI55_HUMAN	tripartite motif-containing 55 isoform 1	379						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)			AGCTTCAGAGCTCTCTCAGGT	0.433													10	32	---	---	---	---	PASS
XKR9	389668	broad.mit.edu	37	8	71646348	71646348	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:71646348C>T	uc003xyq.2	+	5	1345	c.811C>T	c.(811-813)CTT>TTT	p.L271F	XKR9_uc010lze.2_Missense_Mutation_p.L271F|XKR9_uc010lzd.2_Missense_Mutation_p.L139F	NM_001011720	NP_001011720	Q5GH70	XKR9_HUMAN	XK, Kell blood group complex subunit-related	271	Helical; (Potential).					integral to membrane				ovary(1)|skin(1)	2	Breast(64;0.0716)		Epithelial(68;0.00301)|all cancers(69;0.0165)|OV - Ovarian serous cystadenocarcinoma(28;0.0524)|BRCA - Breast invasive adenocarcinoma(89;0.166)			TGGATTCATTCTTATCTTTAC	0.318													9	27	---	---	---	---	PASS
TRPA1	8989	broad.mit.edu	37	8	72935239	72935239	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:72935239G>A	uc003xza.2	-	27	3437	c.3262C>T	c.(3262-3264)CAA>TAA	p.Q1088*	uc011lff.1_Intron|uc003xyy.2_Intron	NM_007332	NP_015628	O75762	TRPA1_HUMAN	ankyrin-like protein 1	1088	Cytoplasmic (Potential).					integral to plasma membrane				ovary(4)|lung(1)|kidney(1)	6			Epithelial(68;0.223)		Menthol(DB00825)	AACCTGTCTTGAAAAGAACAA	0.403													18	36	---	---	---	---	PASS
KCNB2	9312	broad.mit.edu	37	8	73480246	73480246	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:73480246C>T	uc003xzb.2	+	2	865	c.277C>T	c.(277-279)CCA>TCA	p.P93S		NM_004770	NP_004761	Q92953	KCNB2_HUMAN	potassium voltage-gated channel, Shab-related	93	Cytoplasmic (Potential).				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)			TGATCGGCATCCAGGAGCCTT	0.478													21	40	---	---	---	---	PASS
KCNB2	9312	broad.mit.edu	37	8	73849725	73849725	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:73849725C>T	uc003xzb.2	+	3	2723	c.2135C>T	c.(2134-2136)TCC>TTC	p.S712F		NM_004770	NP_004761	Q92953	KCNB2_HUMAN	potassium voltage-gated channel, Shab-related	712	Cytoplasmic (Potential).				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)			CCACTAAAGTCCAGATCCCTC	0.537													44	54	---	---	---	---	PASS
JPH1	56704	broad.mit.edu	37	8	75227317	75227317	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:75227317C>T	uc003yae.2	-	2	958	c.918G>A	c.(916-918)GGG>GGA	p.G306G	JPH1_uc003yaf.2_Silent_p.G306G|JPH1_uc003yag.1_Silent_p.G170G	NM_020647	NP_065698	Q9HDC5	JPH1_HUMAN	junctophilin 1	306	Cytoplasmic (Potential).|MORN 7.				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)			TTGCCCACTCCCCTTCATACT	0.517													32	57	---	---	---	---	PASS
PI15	51050	broad.mit.edu	37	8	75737547	75737547	+	Silent	SNP	C	A	A	rs146928869		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:75737547C>A	uc003yal.2	+	2	242	c.63C>A	c.(61-63)ACC>ACA	p.T21T	uc003yak.1_Intron|PI15_uc003yam.2_Silent_p.T21T	NM_015886	NP_056970	O43692	PI15_HUMAN	protease inhibitor 15 preproprotein	21						extracellular region	peptidase inhibitor activity			central_nervous_system(2)|ovary(1)	3	Breast(64;0.137)		BRCA - Breast invasive adenocarcinoma(89;0.104)|Epithelial(68;0.118)			AAGCAAGTACCGTCGTCCTAC	0.478													6	200	---	---	---	---	PASS
CRISPLD1	83690	broad.mit.edu	37	8	75925135	75925135	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:75925135C>T	uc003yan.2	+	4	763	c.388C>T	c.(388-390)CCG>TCG	p.P130S	CRISPLD1_uc011lfk.1_5'UTR|CRISPLD1_uc011lfl.1_5'UTR	NM_031461	NP_113649	Q9H336	CRLD1_HUMAN	cysteine-rich secretory protein LCCL domain	130						extracellular region				ovary(1)|central_nervous_system(1)	2	Breast(64;0.0799)		Epithelial(68;0.155)|BRCA - Breast invasive adenocarcinoma(89;0.161)			ATATAGGCCCCCGACGTTTCA	0.378													9	26	---	---	---	---	PASS
ZFHX4	79776	broad.mit.edu	37	8	77618373	77618373	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:77618373C>T	uc003yav.2	+	2	2437	c.2050C>T	c.(2050-2052)CCC>TCC	p.P684S	ZFHX4_uc003yat.1_Missense_Mutation_p.P684S|ZFHX4_uc003yau.1_Missense_Mutation_p.P684S|ZFHX4_uc003yaw.1_Missense_Mutation_p.P684S	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	684						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)			ACAGCCTCACCCCAGGCTTGC	0.512										HNSCC(33;0.089)			21	27	---	---	---	---	PASS
ZFHX4	79776	broad.mit.edu	37	8	77618472	77618472	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:77618472C>T	uc003yav.2	+	2	2536	c.2149C>T	c.(2149-2151)CAT>TAT	p.H717Y	ZFHX4_uc003yat.1_Missense_Mutation_p.H717Y|ZFHX4_uc003yau.1_Missense_Mutation_p.H717Y|ZFHX4_uc003yaw.1_Missense_Mutation_p.H717Y	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	717	C2H2-type 3.					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)			CCTCAGTATTCATATGCAGTC	0.522										HNSCC(33;0.089)			10	40	---	---	---	---	PASS
ZFHX4	79776	broad.mit.edu	37	8	77767134	77767134	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:77767134G>A	uc003yav.2	+	10	8229	c.7842G>A	c.(7840-7842)CGG>CGA	p.R2614R	ZFHX4_uc003yau.1_Silent_p.R2659R|ZFHX4_uc003yaw.1_Silent_p.R2614R	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2614	Homeobox 3.					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)			CACGAGCGCGGGAGAGGAAAG	0.527										HNSCC(33;0.089)			25	45	---	---	---	---	PASS
ZFHX4	79776	broad.mit.edu	37	8	77767159	77767159	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:77767159G>A	uc003yav.2	+	10	8254	c.7867G>A	c.(7867-7869)GTG>ATG	p.V2623M	ZFHX4_uc003yau.1_Missense_Mutation_p.V2668M|ZFHX4_uc003yaw.1_Missense_Mutation_p.V2623M	NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	2623						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)			GTTCCGGGCGGTGGGTCCAGC	0.547										HNSCC(33;0.089)			26	40	---	---	---	---	PASS
ZFHX4	79776	broad.mit.edu	37	8	77775467	77775467	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:77775467C>T	uc003yav.2	+	11	9769	c.9382C>T	c.(9382-9384)CCT>TCT	p.P3128S		NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	3124	Pro-rich.					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)			tcctcctcctccttcatcctc	0.363										HNSCC(33;0.089)			9	21	---	---	---	---	PASS
ZFHX4	79776	broad.mit.edu	37	8	77775587	77775587	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:77775587G>A	uc003yav.2	+	11	9889	c.9502G>A	c.(9502-9504)GAA>AAA	p.E3168K		NM_024721	NP_078997	Q86UP3	ZFHX4_HUMAN	zinc finger homeodomain 4	3164						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)			CACCAAACCCGAAAAACACCC	0.413										HNSCC(33;0.089)			46	76	---	---	---	---	PASS
ZBTB10	65986	broad.mit.edu	37	8	81431659	81431659	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:81431659G>A	uc003ybx.3	+	6	3110	c.2512G>A	c.(2512-2514)GAA>AAA	p.E838K	ZBTB10_uc003ybv.3_Missense_Mutation_p.E546K|ZBTB10_uc003ybw.3_Missense_Mutation_p.E814K|ZBTB10_uc010lzt.2_Missense_Mutation_p.E836K	NM_001105539	NP_001099009	Q96DT7	ZBT10_HUMAN	zinc finger and BTB domain containing 10 isoform	838					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			lung(1)	1	all_cancers(3;1.68e-09)|all_epithelial(4;5.13e-11)|Lung NSC(7;1.75e-07)|all_lung(9;7.38e-07)|Breast(3;2.96e-06)		BRCA - Breast invasive adenocarcinoma(6;0.000434)|Epithelial(68;0.00486)|all cancers(69;0.0296)			CGAGGAGAATGAAGTAGGAGA	0.448													11	18	---	---	---	---	PASS
CA13	377677	broad.mit.edu	37	8	86163132	86163132	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:86163132C>T	uc003ydg.2	+	2	543	c.201C>T	c.(199-201)TTC>TTT	p.F67F	CA13_uc003ydf.1_RNA	NM_198584	NP_940986	Q8N1Q1	CAH13_HUMAN	carbonic anhydrase XIII	67					one-carbon metabolic process		carbonate dehydratase activity|zinc ion binding				0						GCCATTCCTTCAATGTTGACT	0.398													58	105	---	---	---	---	PASS
SLC7A13	157724	broad.mit.edu	37	8	87230033	87230033	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:87230033C>T	uc003ydq.1	-	3	943	c.845G>A	c.(844-846)CGA>CAA	p.R282Q	SLC7A13_uc003ydr.1_Missense_Mutation_p.R273Q	NM_138817	NP_620172	Q8TCU3	S7A13_HUMAN	solute carrier family 7, (cationic amino acid	282	Extracellular (Potential).					integral to membrane	amino acid transmembrane transporter activity			central_nervous_system(1)	1						GGGAAAAGCTCGATCAGCCCA	0.308													18	62	---	---	---	---	PASS
CNGB3	54714	broad.mit.edu	37	8	87591016	87591016	+	Silent	SNP	C	T	T	rs142347723		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:87591016C>T	uc003ydx.2	-	17	2050	c.2004G>A	c.(2002-2004)CCG>CCA	p.P668P	CNGB3_uc010maj.2_Silent_p.P525P	NM_019098	NP_061971	Q9NQW8	CNGB3_HUMAN	cyclic nucleotide gated channel beta 3	668	Cytoplasmic (Potential).|cGMP (By similarity).				signal transduction|visual perception	integral to membrane	cGMP binding			ovary(2)|pancreas(1)	3						TCTCTTCTTTCGGTGGGAAGA	0.473													23	54	---	---	---	---	PASS
CNBD1	168975	broad.mit.edu	37	8	88249162	88249162	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:88249162G>A	uc003ydy.2	+	6	641	c.593G>A	c.(592-594)GGA>GAA	p.G198E		NM_173538	NP_775809	Q8NA66	CNBD1_HUMAN	cyclic nucleotide binding domain containing 1	198										ovary(3)	3						GCAAATGATGGATTTTATGTA	0.348													48	64	---	---	---	---	PASS
DCAF4L2	138009	broad.mit.edu	37	8	88885348	88885348	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:88885348G>A	uc003ydz.2	-	1	949	c.852C>T	c.(850-852)TTC>TTT	p.F284F		NM_152418	NP_689631	Q8NA75	DC4L2_HUMAN	WD repeat domain 21C	284	WD 1.									ovary(1)	1						ATGACACCAGGAATTGGCCAT	0.498													25	35	---	---	---	---	PASS
MMP16	4325	broad.mit.edu	37	8	89081643	89081643	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:89081643C>T	uc003yeb.3	-						MMP16_uc003yec.2_Missense_Mutation_p.E444K	NM_005941	NP_005932	P51512	MMP16_HUMAN	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						ttgtgcttttcagtttgtctt	0.000													10	23	---	---	---	---	PASS
RUNX1T1	862	broad.mit.edu	37	8	92972741	92972741	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:92972741C>A	uc003yfd.2	-	11	1628	c.1544G>T	c.(1543-1545)TGC>TTC	p.C515F	RUNX1T1_uc003yfc.1_Missense_Mutation_p.C488F|RUNX1T1_uc003yfe.1_Missense_Mutation_p.C478F|RUNX1T1_uc010mao.2_Missense_Mutation_p.C488F|RUNX1T1_uc011lgi.1_Missense_Mutation_p.C526F|uc010mam.2_5'Flank|RUNX1T1_uc010man.1_Missense_Mutation_p.C140F|RUNX1T1_uc003yfb.1_Missense_Mutation_p.C478F	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	515	MYND-type.				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)			ACAATTCCAGCAACTCTAAAG	0.443													11	40	---	---	---	---	PASS
RUNX1T1	862	broad.mit.edu	37	8	92988211	92988211	+	Intron	SNP	G	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:92988211G>C	uc003yfd.2	-						RUNX1T1_uc003yfc.1_Intron|RUNX1T1_uc003yfe.1_Intron|RUNX1T1_uc010mao.2_Intron|RUNX1T1_uc011lgi.1_Intron|RUNX1T1_uc010man.1_Intron|RUNX1T1_uc003yfb.1_Intron	NM_175634	NP_783552	Q06455	MTG8_HUMAN	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)			TCTATGAAAAGGATGGGAAGG	0.488													6	94	---	---	---	---	PASS
RUNX1T1	862	broad.mit.edu	37	8	92998451	92998451	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:92998451G>A	uc003yfd.2	-	8	1264	c.1180C>T	c.(1180-1182)CGG>TGG	p.R394W	RUNX1T1_uc003yfc.1_Missense_Mutation_p.R367W|RUNX1T1_uc003yfe.1_Missense_Mutation_p.R357W|RUNX1T1_uc010mao.2_Missense_Mutation_p.R367W|RUNX1T1_uc011lgi.1_Missense_Mutation_p.R405W|RUNX1T1_uc010man.1_5'UTR|RUNX1T1_uc003yfb.1_Missense_Mutation_p.R357W	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	394					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)			CTGTACCGCCGGATCCAGTAA	0.517													35	38	---	---	---	---	PASS
RUNX1T1	862	broad.mit.edu	37	8	93017356	93017356	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:93017356C>T	uc003yfd.2	-	5	812	c.728G>A	c.(727-729)CGA>CAA	p.R243Q	RUNX1T1_uc003yfc.1_Missense_Mutation_p.R216Q|RUNX1T1_uc003yfe.1_Missense_Mutation_p.R206Q|RUNX1T1_uc010mao.2_Missense_Mutation_p.R216Q|RUNX1T1_uc011lgi.1_Missense_Mutation_p.R254Q|RUNX1T1_uc003yfb.1_Missense_Mutation_p.R206Q|RUNX1T1_uc003yff.1_Missense_Mutation_p.R206Q	NM_175634	NP_783552	Q06455	MTG8_HUMAN	acute myelogenous leukemia 1 translocation 1	243					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)			GTCTGGAGTTCGCCTCTTCCC	0.522													36	50	---	---	---	---	PASS
CDH17	1015	broad.mit.edu	37	8	95178215	95178215	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:95178215G>A	uc003ygh.2	-						CDH17_uc011lgo.1_Intron|CDH17_uc011lgp.1_Intron	NM_004063	NP_004054	Q12864	CAD17_HUMAN	cadherin 17 precursor							integral to membrane	calcium ion binding			ovary(5)|skin(1)	6	Breast(36;4.65e-06)		BRCA - Breast invasive adenocarcinoma(8;0.00691)			CTATGAGGAAGGAAAGAAGGA	0.378													7	21	---	---	---	---	PASS
CDH17	1015	broad.mit.edu	37	8	95178216	95178216	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:95178216G>A	uc003ygh.2	-						CDH17_uc011lgo.1_Intron|CDH17_uc011lgp.1_Intron	NM_004063	NP_004054	Q12864	CAD17_HUMAN	cadherin 17 precursor							integral to membrane	calcium ion binding			ovary(5)|skin(1)	6	Breast(36;4.65e-06)		BRCA - Breast invasive adenocarcinoma(8;0.00691)			TATGAGGAAGGAAAGAAGGAA	0.373													7	21	---	---	---	---	PASS
KIAA1429	25962	broad.mit.edu	37	8	95539319	95539319	+	Silent	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:95539319A>G	uc003ygo.1	-	8	1166	c.1153T>C	c.(1153-1155)TTA>CTA	p.L385L	KIAA1429_uc003ygp.2_Silent_p.L385L|KIAA1429_uc010maz.1_RNA	NM_015496	NP_056311	Q69YN4	VIR_HUMAN	hypothetical protein LOC25962 isoform 1	385					mRNA processing|RNA splicing	nucleus				ovary(1)|skin(1)	2	Breast(36;3.29e-05)		BRCA - Breast invasive adenocarcinoma(8;0.00185)			AGTTCTGTTAACTTCACTGAG	0.343													54	82	---	---	---	---	PASS
MATN2	4147	broad.mit.edu	37	8	98943539	98943539	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:98943539C>T	uc003yic.2	+	3	732	c.501C>T	c.(499-501)ATC>ATT	p.I167I	MATN2_uc003yib.1_Silent_p.I167I|MATN2_uc010mbh.1_Silent_p.I167I|MATN2_uc003yid.2_Silent_p.I167I|MATN2_uc003yie.1_Silent_p.I167I|MATN2_uc010mbi.1_Silent_p.I41I	NM_002380	NP_002371	O00339	MATN2_HUMAN	matrilin 2 isoform a precursor	167	VWFA 1.					proteinaceous extracellular matrix	calcium ion binding			ovary(2)	2	Breast(36;1.43e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.244)			TCATAATGATCGTGACAGATG	0.597													8	20	---	---	---	---	PASS
C8orf47	203111	broad.mit.edu	37	8	99101751	99101751	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:99101751C>T	uc003yih.1	+	2	654	c.506C>T	c.(505-507)TCT>TTT	p.S169F		NM_173549	NP_775820	Q6P6B1	CH047_HUMAN	hypothetical protein LOC203111	169											0	Breast(36;2.31e-06)		OV - Ovarian serous cystadenocarcinoma(57;0.214)			GAGAAGGACTCTCTCAGAGCA	0.517													26	24	---	---	---	---	PASS
VPS13B	157680	broad.mit.edu	37	8	100830947	100830947	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:100830947T>C	uc003yiv.2	+	47	8638	c.8527T>C	c.(8527-8529)TTC>CTC	p.F2843L	VPS13B_uc003yiw.2_Missense_Mutation_p.F2818L	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	vacuolar protein sorting 13B isoform 5	2843					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)			ATAGATTGTGTTCAGCCCTCT	0.353													37	102	---	---	---	---	PASS
GRHL2	79977	broad.mit.edu	37	8	102555584	102555584	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:102555584G>A	uc010mbu.2	+	2	466	c.136G>A	c.(136-138)GCA>ACA	p.A46T	GRHL2_uc010mbt.1_Missense_Mutation_p.A46T|GRHL2_uc011lhi.1_Missense_Mutation_p.A46T	NM_024915	NP_079191	Q6ISB3	GRHL2_HUMAN	transcription factor CP2-like 3	46	Transcription activation.					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)			TCCCCTGACAGCAGCCACCAA	0.552													26	69	---	---	---	---	PASS
NCALD	83988	broad.mit.edu	37	8	102701575	102701575	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:102701575G>A	uc003yke.2	-	4	913	c.544C>T	c.(544-546)CTC>TTC	p.L182F	NCALD_uc003ykf.2_Missense_Mutation_p.L182F|NCALD_uc003ykg.2_Missense_Mutation_p.L182F|NCALD_uc003ykh.2_Missense_Mutation_p.L182F|NCALD_uc003yki.2_Missense_Mutation_p.L182F|NCALD_uc003ykj.2_Missense_Mutation_p.L182F|NCALD_uc003ykk.2_Missense_Mutation_p.L182F|NCALD_uc003ykl.2_Missense_Mutation_p.L182F	NM_032041	NP_114430	P61601	NCALD_HUMAN	neurocalcin delta	182					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)			CACTGCAGGAGGCGCACAATG	0.557													5	7	---	---	---	---	PASS
RIMS2	9699	broad.mit.edu	37	8	104898040	104898040	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:104898040G>A	uc003yls.2	+	2	788	c.547G>A	c.(547-549)GAA>AAA	p.E183K	RIMS2_uc003ylp.2_Missense_Mutation_p.E405K|RIMS2_uc003ylw.2_Missense_Mutation_p.E213K|RIMS2_uc003ylq.2_Missense_Mutation_p.E213K|RIMS2_uc003ylr.2_Missense_Mutation_p.E213K	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	436					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)			AGCTGCCATGGAAAATCAGCG	0.453										HNSCC(12;0.0054)			17	37	---	---	---	---	PASS
RIMS2	9699	broad.mit.edu	37	8	105261767	105261767	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:105261767C>T	uc003yls.2	+	26	3937	c.3696C>T	c.(3694-3696)ATC>ATT	p.I1232I	RIMS2_uc003ylp.2_Silent_p.I1214I|RIMS2_uc003ylw.2_Silent_p.I1221I|RIMS2_uc003ylq.2_Silent_p.I1028I|RIMS2_uc003ylr.2_Silent_p.I1053I	NM_014677	NP_055492	Q9UQ26	RIMS2_HUMAN	regulating synaptic membrane exocytosis 2	1276	C2 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)			AGGTAGAAATCATCCGGGCCC	0.398										HNSCC(12;0.0054)			19	21	---	---	---	---	PASS
TM7SF4	81501	broad.mit.edu	37	8	105360851	105360851	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:105360851C>T	uc003ylx.1	+	2	120	c.71C>T	c.(70-72)CCC>CTC	p.P24L		NM_030788	NP_110415	Q9H295	TM7S4_HUMAN	dendritic cell-specific transmembrane protein	24					osteoclast differentiation	cell surface|integral to membrane|plasma membrane		p.P24L(1)		pancreas(2)|large_intestine(1)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			CCAAGAAGCCCCGGATGGATG	0.493													21	51	---	---	---	---	PASS
TM7SF4	81501	broad.mit.edu	37	8	105360852	105360852	+	Silent	SNP	C	T	T	rs146486218		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:105360852C>T	uc003ylx.1	+	2	121	c.72C>T	c.(70-72)CCC>CCT	p.P24P		NM_030788	NP_110415	Q9H295	TM7S4_HUMAN	dendritic cell-specific transmembrane protein	24					osteoclast differentiation	cell surface|integral to membrane|plasma membrane		p.P24L(1)		pancreas(2)|large_intestine(1)|ovary(1)	4			OV - Ovarian serous cystadenocarcinoma(57;1.61e-06)|STAD - Stomach adenocarcinoma(118;0.229)			CAAGAAGCCCCGGATGGATGG	0.493													21	50	---	---	---	---	PASS
ZFPM2	23414	broad.mit.edu	37	8	106808023	106808023	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:106808023C>T	uc003ymd.2	+						ZFPM2_uc011lhs.1_5'UTR	NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2						blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			CGTCTGGAGTCCCAAGATCTG	0.333													3	5	---	---	---	---	PASS
ABRA	137735	broad.mit.edu	37	8	107773477	107773477	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:107773477C>T	uc003ymm.3	-	2	988	c.934G>A	c.(934-936)GAC>AAC	p.D312N		NM_139166	NP_631905	Q8N0Z2	ABRA_HUMAN	actin-binding Rho activating protein	312					positive regulation of Rho protein signal transduction|positive regulation of sequence-specific DNA binding transcription factor activity|transcription, DNA-dependent|transmembrane transport	actin cytoskeleton|plasma membrane|sarcomere	actin binding			ovary(2)	2			OV - Ovarian serous cystadenocarcinoma(57;3.83e-09)			AAGCACATGTCCATCATTTCC	0.488													8	31	---	---	---	---	PASS
ANGPT1	284	broad.mit.edu	37	8	108348443	108348443	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:108348443G>A	uc003ymn.2	-	3	978	c.510C>T	c.(508-510)ACC>ACT	p.T170T	ANGPT1_uc011lhv.1_5'UTR|ANGPT1_uc003ymo.2_Silent_p.T170T	NM_001146	NP_001137	Q15389	ANGP1_HUMAN	angiopoietin 1 precursor	170	Potential.				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)			CTAGCTTGTAGGTGGATAATG	0.343													13	15	---	---	---	---	PASS
RSPO2	340419	broad.mit.edu	37	8	109001380	109001380	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:109001380G>A	uc003yms.2	-	3	845	c.187C>T	c.(187-189)CTT>TTT	p.L63F	RSPO2_uc003ymq.2_5'UTR|RSPO2_uc003ymr.2_Intron	NM_178565	NP_848660	Q6UXX9	RSPO2_HUMAN	R-spondin family, member 2 precursor	63					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)			TCTCTTCGAAGGAAGAAGAAC	0.468													25	35	---	---	---	---	PASS
RSPO2	340419	broad.mit.edu	37	8	109001382	109001382	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:109001382A>G	uc003yms.2	-	3	843	c.185T>C	c.(184-186)TTC>TCC	p.F62S	RSPO2_uc003ymq.2_5'UTR|RSPO2_uc003ymr.2_Intron	NM_178565	NP_848660	Q6UXX9	RSPO2_HUMAN	R-spondin family, member 2 precursor	62					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)			TCTTCGAAGGAAGAAGAACAA	0.468													25	34	---	---	---	---	PASS
TMEM74	157753	broad.mit.edu	37	8	109796878	109796878	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:109796878C>T	uc003ymy.1	-	2	555	c.450G>A	c.(448-450)GAG>GAA	p.E150E	TMEM74_uc003ymx.2_Intron	NM_153015	NP_694560	Q96NL1	TMM74_HUMAN	transmembrane protein 74	150					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)			ATATGGCAGCCTCTTGGGACC	0.493													10	31	---	---	---	---	PASS
PKHD1L1	93035	broad.mit.edu	37	8	110425768	110425768	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:110425768G>A	uc003yne.2	+	21	2458	c.2354G>A	c.(2353-2355)GGA>GAA	p.G785E		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	785	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TTTGCTTATGGAAACAAGTAA	0.313										HNSCC(38;0.096)			3	7	---	---	---	---	PASS
PKHD1L1	93035	broad.mit.edu	37	8	110437378	110437378	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:110437378A>T	uc003yne.2	+	24	2866	c.2762A>T	c.(2761-2763)AAA>ATA	p.K921I		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	921	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			GGCGAGTCAAAAATTCATATT	0.318										HNSCC(38;0.096)			14	27	---	---	---	---	PASS
PKHD1L1	93035	broad.mit.edu	37	8	110457850	110457850	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:110457850C>T	uc003yne.2	+	38	5856	c.5752C>T	c.(5752-5754)CTC>TTC	p.L1918F		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	1918	Extracellular (Potential).|IPT/TIG 12.				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			TACTCCATTTCTCAGAGGAAT	0.358										HNSCC(38;0.096)			5	15	---	---	---	---	PASS
PKHD1L1	93035	broad.mit.edu	37	8	110530644	110530644	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:110530644G>A	uc003yne.2	+	73	12042	c.11938G>A	c.(11938-11940)GGG>AGG	p.G3980R		NM_177531	NP_803875	Q86WI1	PKHL1_HUMAN	fibrocystin L precursor	3980	Extracellular (Potential).				immune response	cytosol|extracellular space|integral to membrane	receptor activity			ovary(9)|central_nervous_system(2)|large_intestine(1)|breast(1)|pancreas(1)	14			OV - Ovarian serous cystadenocarcinoma(57;9.88e-13)			CAAAATAAGAGGGAAGAGTCT	0.393										HNSCC(38;0.096)			24	50	---	---	---	---	PASS
KCNV1	27012	broad.mit.edu	37	8	110980452	110980452	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:110980452C>G	uc003ynr.3	-	3	1710	c.1368G>C	c.(1366-1368)AAG>AAC	p.K456N	KCNV1_uc010mcw.2_Missense_Mutation_p.K456N	NM_014379	NP_055194	Q6PIU1	KCNV1_HUMAN	potassium channel, subfamily V, member 1	456	Cytoplasmic (Potential).					voltage-gated potassium channel complex	ion channel inhibitor activity|potassium channel regulator activity|voltage-gated potassium channel activity			lung(1)|kidney(1)	2	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;5.35e-13)			TGGCTATATTCTTGGTAAGCT	0.433													15	33	---	---	---	---	PASS
KCNV1	27012	broad.mit.edu	37	8	110980599	110980599	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:110980599G>A	uc003ynr.3	-	3	1563	c.1221C>T	c.(1219-1221)ATC>ATT	p.I407I	KCNV1_uc010mcw.2_Silent_p.I407I	NM_014379	NP_055194	Q6PIU1	KCNV1_HUMAN	potassium channel, subfamily V, member 1	407	Helical; Name=Segment S6; (Potential).					voltage-gated potassium channel complex	ion channel inhibitor activity|potassium channel regulator activity|voltage-gated potassium channel activity			lung(1)|kidney(1)	2	all_neural(195;0.219)		OV - Ovarian serous cystadenocarcinoma(57;5.35e-13)			TGAAGGCCACGATTTTGCCTG	0.473													35	58	---	---	---	---	PASS
CSMD3	114788	broad.mit.edu	37	8	113299319	113299319	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:113299319C>T	uc003ynu.2	-	58	9464	c.9305G>A	c.(9304-9306)TGG>TAG	p.W3102*	CSMD3_uc003yns.2_Nonsense_Mutation_p.W2304*|CSMD3_uc003ynt.2_Nonsense_Mutation_p.W3062*|CSMD3_uc011lhx.1_Nonsense_Mutation_p.W2933*	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	3102	Extracellular (Potential).|Sushi 22.					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						CCTTCCGGTCCAACTGCCATT	0.383										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			14	38	---	---	---	---	PASS
CSMD3	114788	broad.mit.edu	37	8	113303820	113303820	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:113303820G>A	uc003ynu.2	-	56	9052	c.8893C>T	c.(8893-8895)CCT>TCT	p.P2965S	CSMD3_uc003yns.2_Missense_Mutation_p.P2167S|CSMD3_uc003ynt.2_Missense_Mutation_p.P2925S|CSMD3_uc011lhx.1_Missense_Mutation_p.P2796S	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	2965	Extracellular (Potential).|Sushi 20.					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						AAATATCCAGGATTGCAGTCA	0.343										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			15	44	---	---	---	---	PASS
CSMD3	114788	broad.mit.edu	37	8	113349970	113349970	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:113349970G>A	uc003ynu.2	-						CSMD3_uc003yns.2_Intron|CSMD3_uc003ynt.2_Intron|CSMD3_uc011lhx.1_Intron|CSMD3_uc003ynw.1_5'Flank	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	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						GCTGGAAAGAGGAAAAAGAAA	0.378										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			18	34	---	---	---	---	PASS
CSMD3	114788	broad.mit.edu	37	8	113349971	113349971	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:113349971G>A	uc003ynu.2	-						CSMD3_uc003yns.2_Intron|CSMD3_uc003ynt.2_Intron|CSMD3_uc011lhx.1_Intron|CSMD3_uc003ynw.1_5'Flank	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	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						CTGGAAAGAGGAAAAAGAAAG	0.383										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			15	34	---	---	---	---	PASS
CSMD3	114788	broad.mit.edu	37	8	113421272	113421272	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:113421272G>A	uc003ynu.2	-						CSMD3_uc003yns.2_Intron|CSMD3_uc003ynt.2_Intron|CSMD3_uc011lhx.1_Intron	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	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						CTGATCAACAGGAACCCGGAG	0.388										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			27	41	---	---	---	---	PASS
CSMD3	114788	broad.mit.edu	37	8	113562986	113562986	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:113562986C>T	uc003ynu.2	-	27	4637	c.4478G>A	c.(4477-4479)GGA>GAA	p.G1493E	CSMD3_uc003yns.2_Missense_Mutation_p.G765E|CSMD3_uc003ynt.2_Missense_Mutation_p.G1453E|CSMD3_uc011lhx.1_Missense_Mutation_p.G1389E	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1493	Extracellular (Potential).|CUB 8.					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						GCTATGAATTCCTTCAGGAAT	0.358										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			19	31	---	---	---	---	PASS
CSMD3	114788	broad.mit.edu	37	8	113564835	113564835	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:113564835C>T	uc003ynu.2	-	26	4508	c.4349G>A	c.(4348-4350)GGA>GAA	p.G1450E	CSMD3_uc003yns.2_Missense_Mutation_p.G722E|CSMD3_uc003ynt.2_Missense_Mutation_p.G1410E|CSMD3_uc011lhx.1_Missense_Mutation_p.G1346E	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1450	Extracellular (Potential).|CUB 8.					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						GACAATATTTCCAGGATCTAC	0.348										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			7	32	---	---	---	---	PASS
CSMD3	114788	broad.mit.edu	37	8	113564926	113564926	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:113564926C>A	uc003ynu.2	-	26	4417	c.4258G>T	c.(4258-4260)GGA>TGA	p.G1420*	CSMD3_uc003yns.2_Nonsense_Mutation_p.G692*|CSMD3_uc003ynt.2_Nonsense_Mutation_p.G1380*|CSMD3_uc011lhx.1_Nonsense_Mutation_p.G1316*	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	1420	Extracellular (Potential).|CUB 8.					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						GATGATTCTCCTTTAAAACGA	0.343										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			4	54	---	---	---	---	PASS
CSMD3	114788	broad.mit.edu	37	8	114111025	114111025	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:114111025C>T	uc003ynu.2	-	5	1036	c.877G>A	c.(877-879)GAT>AAT	p.D293N	CSMD3_uc003ynt.2_Missense_Mutation_p.D253N|CSMD3_uc011lhx.1_Missense_Mutation_p.D293N|CSMD3_uc010mcx.1_Missense_Mutation_p.D293N	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	293	Extracellular (Potential).|CUB 2.					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						TCTAAGTAATCATATTTCTCT	0.363										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			7	28	---	---	---	---	PASS
CSMD3	114788	broad.mit.edu	37	8	114186156	114186156	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:114186156G>A	uc003ynu.2	-						CSMD3_uc003ynt.2_Intron|CSMD3_uc011lhx.1_Intron|CSMD3_uc010mcx.1_Intron	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	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						CTATTAAAAAGGAGGAAAAGG	0.348										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			7	23	---	---	---	---	PASS
CSMD3	114788	broad.mit.edu	37	8	114290921	114290921	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:114290921G>A	uc003ynu.2	-	3	573	c.414C>T	c.(412-414)TTC>TTT	p.F138F	CSMD3_uc003ynt.2_Silent_p.F98F|CSMD3_uc011lhx.1_Silent_p.F138F|CSMD3_uc010mcx.1_Silent_p.F138F	NM_198123	NP_937756	Q7Z407	CSMD3_HUMAN	CUB and Sushi multiple domains 3 isoform 1	138	Extracellular (Potential).|CUB 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						GTGGCAGATGGAATCCTGTTA	0.318										HNSCC(6;0.00088)|TCGA Ovarian(7;0.080)			16	26	---	---	---	---	PASS
COLEC10	10584	broad.mit.edu	37	8	120118127	120118127	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:120118127G>A	uc003yoo.2	+	6	628	c.531G>A	c.(529-531)AGG>AGA	p.R177R		NM_006438	NP_006429	Q9Y6Z7	COL10_HUMAN	collectin sub-family member 10 precursor	177	C-type lectin.					collagen|cytoplasm	mannose binding			ovary(2)|skin(1)	3	all_cancers(13;4.13e-26)|Lung NSC(37;1.36e-07)|Ovarian(258;0.018)|Hepatocellular(40;0.234)		STAD - Stomach adenocarcinoma(47;0.00113)			CCCACTGCAGGATTCGGGGTG	0.507													23	25	---	---	---	---	PASS
ENPP2	5168	broad.mit.edu	37	8	120581497	120581497	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:120581497G>A	uc003yot.1	-	21	2117	c.2031C>T	c.(2029-2031)TCC>TCT	p.S677S	ENPP2_uc011lic.1_Silent_p.S215S|ENPP2_uc003yor.1_Silent_p.S312S|ENPP2_uc003yos.1_Silent_p.S729S|ENPP2_uc010mdd.1_Silent_p.S702S	NM_001040092	NP_001035181	Q13822	ENPP2_HUMAN	autotaxin isoform 2 preproprotein	677					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)			GGAATCCGTAGGACATCTGCT	0.453													52	71	---	---	---	---	PASS
ENPP2	5168	broad.mit.edu	37	8	120602865	120602865	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:120602865C>T	uc003yot.1	-	13	1173	c.1087G>A	c.(1087-1089)GAA>AAA	p.E363K	ENPP2_uc003yor.1_Missense_Mutation_p.E2K|ENPP2_uc003yos.1_Missense_Mutation_p.E415K|ENPP2_uc010mdd.1_Missense_Mutation_p.E363K	NM_001040092	NP_001035181	Q13822	ENPP2_HUMAN	autotaxin isoform 2 preproprotein	363					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)			GTGACATCTTCCATTCCTATG	0.363													12	21	---	---	---	---	PASS
TAF2	6873	broad.mit.edu	37	8	120797488	120797488	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:120797488G>A	uc003you.2	-	15	2082	c.1812C>T	c.(1810-1812)ATC>ATT	p.I604I		NM_003184	NP_003175	Q6P1X5	TAF2_HUMAN	TBP-associated factor 2	604				I -> K (in Ref. 6; AAH35673/AAH47732).	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)			TCATCAGTGGGATTTTTTTCT	0.294													7	23	---	---	---	---	PASS
COL14A1	7373	broad.mit.edu	37	8	121243858	121243858	+	Splice_Site	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:121243858G>A	uc003yox.2	+	19	2614	c.2349_splice	c.e19+1	p.T783_splice	COL14A1_uc003yoy.2_Splice_Site_p.T461_splice	NM_021110	NP_066933	Q05707	COEA1_HUMAN	collagen, type XIV, alpha 1 precursor						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)			CATAGGAACGGTCTGTATAAA	0.443													11	26	---	---	---	---	PASS
ATAD2	29028	broad.mit.edu	37	8	124358871	124358871	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:124358871G>A	uc003yqh.3	-	17	2440	c.2332C>T	c.(2332-2334)CTT>TTT	p.L778F	ATAD2_uc011lii.1_Missense_Mutation_p.L569F|ATAD2_uc003yqi.3_RNA|ATAD2_uc003yqj.2_Missense_Mutation_p.L778F	NM_014109	NP_054828	Q6PL18	ATAD2_HUMAN	ATPase family, AAA domain containing 2	778					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrion|nucleus	ATP binding|ATPase activity			ovary(2)	2	Lung NSC(37;1.25e-09)|Ovarian(258;0.00838)		STAD - Stomach adenocarcinoma(47;0.00288)			TTCAAATGAAGAAAATTAAAA	0.279													14	25	---	---	---	---	PASS
FER1L6	654463	broad.mit.edu	37	8	125076649	125076649	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:125076649C>T	uc003yqw.2	+	26	3596	c.3390C>T	c.(3388-3390)CCC>CCT	p.P1130P	uc003yqy.1_Intron	NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6	1130	Cytoplasmic (Potential).					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)			CCCAGGATCCCCCAGCAGATC	0.572													27	83	---	---	---	---	PASS
FER1L6	654463	broad.mit.edu	37	8	125107243	125107243	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:125107243G>A	uc003yqw.2	+	35	4865	c.4659G>A	c.(4657-4659)CGG>CGA	p.R1553R	uc003yqy.1_Intron	NM_001039112	NP_001034201	Q2WGJ9	FR1L6_HUMAN	fer-1-like 6	1553	Cytoplasmic (Potential).					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)			TAGAAACTCGGCCACTGTACC	0.463													25	37	---	---	---	---	PASS
MTSS1	9788	broad.mit.edu	37	8	125580630	125580630	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:125580630C>T	uc003yrk.2	-	7	1142	c.608G>A	c.(607-609)CGG>CAG	p.R203Q	NDUFB9_uc011lim.1_3'UTR|MTSS1_uc011lin.1_5'Flank|MTSS1_uc011lio.1_Missense_Mutation_p.R93Q|MTSS1_uc003yri.2_Missense_Mutation_p.R3Q|MTSS1_uc003yrj.2_Missense_Mutation_p.R203Q|MTSS1_uc003yrl.2_Missense_Mutation_p.R207Q	NM_014751	NP_055566	O43312	MTSS1_HUMAN	metastasis suppressor 1	203	IMD.				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)			AATCACTGGCCGCAGCATAGA	0.428													16	33	---	---	---	---	PASS
SQLE	6713	broad.mit.edu	37	8	126021463	126021463	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:126021463C>T	uc011liq.1	+	6	1912	c.986C>T	c.(985-987)CCG>CTG	p.P329L		NM_003129	NP_003120	Q14534	ERG1_HUMAN	squalene epoxidase	329					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)	TTAGCTAACCCGAGTCCAGTT	0.323													18	59	---	---	---	---	PASS
KIAA0196	9897	broad.mit.edu	37	8	126071656	126071656	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:126071656G>A	uc003yrt.2	-	13	1979	c.1650C>T	c.(1648-1650)ATC>ATT	p.I550I	KIAA0196_uc011lir.1_Silent_p.I402I|KIAA0196_uc003yru.1_Silent_p.I124I	NM_014846	NP_055661	Q12768	STRUM_HUMAN	strumpellin	550					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)			GGTCCCCAACGATCTGCATTG	0.423													43	36	---	---	---	---	PASS
FAM49B	51571	broad.mit.edu	37	8	130874574	130874574	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:130874574G>A	uc003yss.2	-	8	751	c.202C>T	c.(202-204)CAG>TAG	p.Q68*	FAM49B_uc003yst.2_Nonsense_Mutation_p.Q68*|FAM49B_uc003ysu.2_Nonsense_Mutation_p.Q68*|FAM49B_uc003ysv.2_Intron|FAM49B_uc003ysw.2_Nonsense_Mutation_p.Q68*|FAM49B_uc003ysx.2_Nonsense_Mutation_p.Q68*|FAM49B_uc003ysy.1_Nonsense_Mutation_p.Q68*	NM_016623	NP_057707	Q9NUQ9	FA49B_HUMAN	hypothetical protein LOC51571	68											0	Ovarian(5;0.000567)|Esophageal squamous(12;0.00693)|Acute lymphoblastic leukemia(118;0.155)		LUAD - Lung adenocarcinoma(14;0.0989)			GCTGGATGCTGGATTGCCTTC	0.338													20	50	---	---	---	---	PASS
ASAP1	50807	broad.mit.edu	37	8	131128994	131128994	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:131128994G>A	uc003yta.1	-						ASAP1_uc003ysz.1_Intron|ASAP1_uc011liw.1_Intron	NM_018482	NP_060952	Q9ULH1	ASAP1_HUMAN	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						CTGGTTAACTGAAATAGGAAA	0.368													14	46	---	---	---	---	PASS
ADCY8	114	broad.mit.edu	37	8	131862058	131862058	+	Intron	SNP	A	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:131862058A>C	uc003ytd.3	-						ADCY8_uc010mds.2_Intron	NM_001115	NP_001106	P40145	ADCY8_HUMAN	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)			CTCTGCAGGGAAACACAGAAT	0.453										HNSCC(32;0.087)			8	14	---	---	---	---	PASS
ADCY8	114	broad.mit.edu	37	8	131896830	131896830	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:131896830C>T	uc003ytd.3	-	8	2345	c.2089G>A	c.(2089-2091)GAC>AAC	p.D697N	ADCY8_uc010mds.2_Missense_Mutation_p.D697N	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	697	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			AGGCTGGAGTCTTTAAACATC	0.468										HNSCC(32;0.087)			31	69	---	---	---	---	PASS
ADCY8	114	broad.mit.edu	37	8	131896949	131896949	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:131896949G>A	uc003ytd.3	-	8	2226	c.1970C>T	c.(1969-1971)GCT>GTT	p.A657V	ADCY8_uc010mds.2_Missense_Mutation_p.A657V	NM_001115	NP_001106	P40145	ADCY8_HUMAN	adenylate cyclase 8	657	Cytoplasmic (Potential).				activation of adenylate cyclase activity by G-protein signaling pathway|activation of phospholipase C activity|activation of protein kinase A activity|cellular response to glucagon stimulus|energy reserve metabolic process|inhibition of adenylate cyclase activity by G-protein signaling pathway|nerve growth factor receptor signaling pathway|synaptic transmission|transmembrane transport|water transport	integral to membrane|membrane fraction|plasma membrane	ATP binding|calcium- and calmodulin-responsive adenylate cyclase activity|metal ion binding			skin(4)|large_intestine(1)|central_nervous_system(1)	6	Esophageal squamous(12;0.00693)|Ovarian(258;0.00707)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000538)			GACATGCAAAGCTTGTGCAAG	0.443										HNSCC(32;0.087)			35	84	---	---	---	---	PASS
OC90	729330	broad.mit.edu	37	8	133036823	133036823	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:133036823C>T	uc003ytg.2	-	13	1339	c.1339G>A	c.(1339-1341)GAG>AAG	p.E447K	OC90_uc011lix.1_Missense_Mutation_p.E447K	NM_001080399	NP_001073868	Q02509	OC90_HUMAN	otoconin 90	463					lipid catabolic process|phospholipid metabolic process		calcium ion binding|phospholipase A2 activity			ovary(2)|skin(1)	3	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)			GGGTCCTCCTCGCTGTCCTCC	0.647													6	13	---	---	---	---	PASS
OC90	729330	broad.mit.edu	37	8	133036847	133036847	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:133036847C>T	uc003ytg.2	-	13	1315	c.1315G>A	c.(1315-1317)GGC>AGC	p.G439S	OC90_uc011lix.1_Missense_Mutation_p.G439S	NM_001080399	NP_001073868	Q02509	OC90_HUMAN	otoconin 90	455					lipid catabolic process|phospholipid metabolic process		calcium ion binding|phospholipase A2 activity			ovary(2)|skin(1)	3	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)			GAGCTGGAGCCCAGGGTGGGG	0.647													7	10	---	---	---	---	PASS
OC90	729330	broad.mit.edu	37	8	133045358	133045358	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:133045358G>A	uc003ytg.2	-	10	787	c.787C>T	c.(787-789)CCT>TCT	p.P263S	OC90_uc011lix.1_Missense_Mutation_p.P263S	NM_001080399	NP_001073868	Q02509	OC90_HUMAN	otoconin 90	279					lipid catabolic process|phospholipid metabolic process		calcium ion binding|phospholipase A2 activity			ovary(2)|skin(1)	3	Esophageal squamous(12;0.00693)|Ovarian(258;0.00769)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.000805)			ATGCCAGCAGGGACAAGGGTT	0.448													4	15	---	---	---	---	PASS
PHF20L1	51105	broad.mit.edu	37	8	133854821	133854821	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:133854821C>T	uc003ytt.2	+	19	2774	c.2449C>T	c.(2449-2451)CAA>TAA	p.Q817*	PHF20L1_uc011lja.1_Nonsense_Mutation_p.Q791*	NM_016018	NP_057102	A8MW92	P20L1_HUMAN	PHD finger protein 20-like 1 isoform 1	817							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)			AGACCAAGATCAAATAATAGC	0.388													24	37	---	---	---	---	PASS
ZFAT	57623	broad.mit.edu	37	8	135614580	135614580	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:135614580G>A	uc003yup.2	-	6	1557	c.1382C>T	c.(1381-1383)GCC>GTC	p.A461V	ZFAT_uc003yun.2_Missense_Mutation_p.A449V|ZFAT_uc003yuo.2_Missense_Mutation_p.A449V|ZFAT_uc010meh.2_Missense_Mutation_p.A449V|ZFAT_uc010mei.2_RNA|ZFAT_uc003yuq.2_Missense_Mutation_p.A449V|ZFAT_uc010mej.2_Missense_Mutation_p.A399V|ZFAT_uc003yur.2_Missense_Mutation_p.A449V	NM_020863	NP_065914	Q9P243	ZFAT_HUMAN	zinc finger protein 406 isoform ZFAT-1	461	C2H2-type 9.				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)			GCGGCAGACGGCACAGACGTA	0.602													10	30	---	---	---	---	PASS
KHDRBS3	10656	broad.mit.edu	37	8	136533515	136533515	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:136533515G>A	uc003yuv.2	+	2	518	c.124G>A	c.(124-126)GAA>AAA	p.E42K	KHDRBS3_uc003yuw.2_Missense_Mutation_p.E42K	NM_006558	NP_006549	O75525	KHDR3_HUMAN	KH domain containing, RNA binding, signal	42					regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	SH3 domain binding			ovary(2)	2	all_epithelial(106;2.85e-16)|all_neural(2;2.72e-06)|Lung NSC(106;3.95e-06)|all_lung(105;1.11e-05)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.247)			AGGCAAGGATGAAGAAAAGTA	0.408													38	79	---	---	---	---	PASS
KHDRBS3	10656	broad.mit.edu	37	8	136561054	136561054	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:136561054C>T	uc003yuv.2	+	4	776	c.382C>T	c.(382-384)CAT>TAT	p.H128Y	KHDRBS3_uc003yuw.2_Missense_Mutation_p.H128Y	NM_006558	NP_006549	O75525	KHDR3_HUMAN	KH domain containing, RNA binding, signal	128					regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus	SH3 domain binding			ovary(2)	2	all_epithelial(106;2.85e-16)|all_neural(2;2.72e-06)|Lung NSC(106;3.95e-06)|all_lung(105;1.11e-05)|Ovarian(258;0.00579)|Acute lymphoblastic leukemia(118;0.155)		BRCA - Breast invasive adenocarcinoma(115;0.247)			TGATGATCTCCATGTTCTCAT	0.403													9	15	---	---	---	---	PASS
FAM135B	51059	broad.mit.edu	37	8	139144926	139144926	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:139144926C>T	uc003yuy.2	-	20	4302	c.4131G>A	c.(4129-4131)CTG>CTA	p.L1377L	FAM135B_uc003yux.2_Silent_p.L1278L|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	1377										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)			CTCGGCCGATCAGGGTGTTGG	0.527										HNSCC(54;0.14)			39	83	---	---	---	---	PASS
FAM135B	51059	broad.mit.edu	37	8	139190891	139190891	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:139190891C>T	uc003yuy.2	-	10	1087	c.916G>A	c.(916-918)GAT>AAT	p.D306N	FAM135B_uc003yux.2_Missense_Mutation_p.D207N|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	306										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)			CAGGCCAGATCCTTGCTTATC	0.512										HNSCC(54;0.14)			20	36	---	---	---	---	PASS
FAM135B	51059	broad.mit.edu	37	8	139263169	139263169	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:139263169G>A	uc003yuy.2	-	6	628	c.457C>T	c.(457-459)CCG>TCG	p.P153S	FAM135B_uc003yux.2_Missense_Mutation_p.P54S|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	153										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)			AACATGACCGGGACCTGGTGG	0.587										HNSCC(54;0.14)			40	75	---	---	---	---	PASS
COL22A1	169044	broad.mit.edu	37	8	139696711	139696711	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:139696711C>T	uc003yvd.2	-	39	3416	c.2969G>A	c.(2968-2970)GGA>GAA	p.G990E	COL22A1_uc011ljo.1_Missense_Mutation_p.G290E	NM_152888	NP_690848	Q8NFW1	COMA1_HUMAN	collagen, type XXII, alpha 1	990	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)			TCCACGGAGTCCCTGGAGAAA	0.537										HNSCC(7;0.00092)			37	62	---	---	---	---	PASS
KCNK9	51305	broad.mit.edu	37	8	140630489	140630489	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:140630489C>T	uc003yvf.1	-						KCNK9_uc003yvg.1_3'UTR|KCNK9_uc003yve.1_Intron	NM_016601	NP_057685	Q9NPC2	KCNK9_HUMAN	potassium channel, subfamily K, member 9							integral to membrane|membrane fraction	potassium channel activity|voltage-gated ion channel activity			ovary(2)|lung(1)	3	all_cancers(97;3.94e-14)|all_epithelial(106;4.81e-13)|Lung NSC(106;8.18e-05)|all_lung(105;0.00015)|Ovarian(258;0.00235)|Acute lymphoblastic leukemia(118;0.155)	Ovarian(118;0.134)	BRCA - Breast invasive adenocarcinoma(115;0.0855)			TGTCCCATTTCCCTCCCCACA	0.398													16	65	---	---	---	---	PASS
EIF2C2	27161	broad.mit.edu	37	8	141572546	141572546	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:141572546C>T	uc003yvn.2	-						EIF2C2_uc010men.2_Intron|EIF2C2_uc010meo.2_Intron	NM_012154	NP_036286	Q9UKV8	AGO2_HUMAN	argonaute 2 isoform 1						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)			CGTGTGGCGCCCTCACCTCAT	0.642													17	39	---	---	---	---	PASS
SLC45A4	57210	broad.mit.edu	37	8	142222527	142222527	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:142222527C>T	uc003ywd.1	-	7	2225	c.1917G>A	c.(1915-1917)GGG>GGA	p.G639G	SLC45A4_uc003ywc.1_Silent_p.G639G|SLC45A4_uc010meq.1_Silent_p.G637G	NM_001080431	NP_001073900	Q5BKX6	S45A4_HUMAN	solute carrier family 45, member 4	690					transport	integral to membrane				ovary(2)	2	all_cancers(97;1.52e-15)|all_epithelial(106;2.92e-14)|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;0.0493)			CGCGGACAGTCCCCACGGCGT	0.612													19	31	---	---	---	---	PASS
SLC45A4	57210	broad.mit.edu	37	8	142238345	142238345	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:142238345G>A	uc003ywd.1	-	1	329	c.21C>T	c.(19-21)GCC>GCT	p.A7A	SLC45A4_uc003ywc.1_Silent_p.A7A|SLC45A4_uc010meq.1_Intron	NM_001080431	NP_001073900	Q5BKX6	S45A4_HUMAN	solute carrier family 45, member 4	Error:Variant_position_missing_in_Q5BKX6_after_alignment					transport	integral to membrane				ovary(2)	2	all_cancers(97;1.52e-15)|all_epithelial(106;2.92e-14)|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;0.0493)			ACAGCCCTGAGGCTGGGCTTG	0.547													34	44	---	---	---	---	PASS
FLJ43860	389690	broad.mit.edu	37	8	142506592	142506592	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:142506592G>A	uc003ywi.2	-	2	171	c.90C>T	c.(88-90)CCC>CCT	p.P30P	FLJ43860_uc011ljs.1_5'Flank|FLJ43860_uc010meu.1_5'Flank	NM_207414	NP_997297	Q6ZUA9	Q6ZUA9_HUMAN	hypothetical protein LOC389690	30							binding				0	all_cancers(97;7.79e-15)|all_epithelial(106;4.52e-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;0.0493)			TGGAGACAGGGGGGGAGATTC	0.557													15	19	---	---	---	---	PASS
BAI1	575	broad.mit.edu	37	8	143560703	143560703	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:143560703C>T	uc003ywm.2	+	7	1764	c.1581C>T	c.(1579-1581)GCC>GCT	p.A527A		NM_001702	NP_001693	O14514	BAI1_HUMAN	brain-specific angiogenesis inhibitor 1	527	Extracellular (Potential).|TSP type-1 5.				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)					AGTGGCAGGCCTGGGCGTCAT	0.672													6	7	---	---	---	---	PASS
ZNF696	79943	broad.mit.edu	37	8	144378708	144378708	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:144378708C>T	uc003yxy.3	+	3	1272	c.863C>T	c.(862-864)ACG>ATG	p.T288M		NM_030895	NP_112157	Q9H7X3	ZN696_HUMAN	zinc finger protein 696	288					regulation of transcription, DNA-dependent|transcription, DNA-dependent	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)			CGCGTGCACACGGGGGAGCGG	0.726													5	8	---	---	---	---	PASS
EEF1D	1936	broad.mit.edu	37	8	144663391	144663391	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:144663391G>A	uc011lki.1	-						NAPRT1_uc003yym.3_5'Flank|NAPRT1_uc003yyn.3_5'Flank|NAPRT1_uc011lkh.1_5'Flank|NAPRT1_uc003yyo.3_5'Flank|EEF1D_uc003yyp.1_Intron|EEF1D_uc003yyq.1_Intron|EEF1D_uc011lkj.1_Intron|EEF1D_uc003yyr.2_Intron|EEF1D_uc003yyt.2_Intron|EEF1D_uc011lkk.1_Intron|EEF1D_uc003yys.2_Intron|EEF1D_uc003yyv.2_Intron|EEF1D_uc003yyu.2_Intron|EEF1D_uc011lkl.1_Intron	NM_001130057	NP_001123529	P29692	EF1D_HUMAN	eukaryotic translation elongation factor 1 delta						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)			ACTGGCCCGGGGCCTCACCGC	0.687													8	15	---	---	---	---	PASS
ZNF707	286075	broad.mit.edu	37	8	144773320	144773320	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:144773320C>T	uc003yze.3	+	5	408	c.93C>T	c.(91-93)GCC>GCT	p.A31A	ZNF707_uc010mfh.2_Silent_p.A31A|ZNF707_uc010mfi.2_Silent_p.A31A|ZNF707_uc003yzf.3_Silent_p.A31A|ZNF707_uc003yzh.3_5'UTR|ZNF707_uc011lkq.1_Intron	NM_173831	NP_776192	Q96C28	ZN707_HUMAN	zinc finger protein 707	31	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(1)	1	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;5.6e-41)|Epithelial(56;1.02e-39)|all cancers(56;9.65e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			GCCAGAGGGCCCTCTACCGGG	0.622													13	20	---	---	---	---	PASS
ZNF707	286075	broad.mit.edu	37	8	144773321	144773321	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:144773321C>T	uc003yze.3	+	5	409	c.94C>T	c.(94-96)CTC>TTC	p.L32F	ZNF707_uc010mfh.2_Missense_Mutation_p.L32F|ZNF707_uc010mfi.2_Missense_Mutation_p.L32F|ZNF707_uc003yzf.3_Missense_Mutation_p.L32F|ZNF707_uc003yzh.3_5'UTR|ZNF707_uc011lkq.1_Intron	NM_173831	NP_776192	Q96C28	ZN707_HUMAN	zinc finger protein 707	32	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|protein binding|zinc ion binding			breast(1)	1	all_cancers(97;3.74e-11)|all_epithelial(106;2.62e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;5.6e-41)|Epithelial(56;1.02e-39)|all cancers(56;9.65e-35)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.146)			CCAGAGGGCCCTCTACCGGGA	0.627													13	21	---	---	---	---	PASS
SCRIB	23513	broad.mit.edu	37	8	144890812	144890812	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:144890812C>T	uc003yzp.1	-	15	2089	c.2082G>A	c.(2080-2082)AAG>AAA	p.K694K	SCRIB_uc003yzo.1_Silent_p.K694K	NM_015356	NP_056171	Q14160	SCRIB_HUMAN	scribble isoform b	694	Potential.|Glu-rich.|Sufficient for targeting to adherens junction and to inhibit cell proliferation.				activation of Rac GTPase activity|apoptosis involved in morphogenesis|cell migration|cell proliferation|cell-cell adhesion|establishment of apical/basal cell polarity|interspecies interaction between organisms|mammary gland duct morphogenesis|negative regulation of mitotic cell cycle|positive chemotaxis|positive regulation of apoptosis|positive regulation of receptor recycling|protein localization to adherens junction	cell-cell adherens junction|Scrib-APC-beta-catenin complex	protein binding			urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)|pancreas(1)	5	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;1.12e-34)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			CGGCCCCCTCCTTGTCCTCCT	0.473													11	13	---	---	---	---	PASS
SCRIB	23513	broad.mit.edu	37	8	144894563	144894563	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:144894563G>A	uc003yzp.1	-						SCRIB_uc003yzo.1_Intron	NM_015356	NP_056171	Q14160	SCRIB_HUMAN	scribble isoform b						activation of Rac GTPase activity|apoptosis involved in morphogenesis|cell migration|cell proliferation|cell-cell adhesion|establishment of apical/basal cell polarity|interspecies interaction between organisms|mammary gland duct morphogenesis|negative regulation of mitotic cell cycle|positive chemotaxis|positive regulation of apoptosis|positive regulation of receptor recycling|protein localization to adherens junction	cell-cell adherens junction|Scrib-APC-beta-catenin complex	protein binding			urinary_tract(1)|ovary(1)|kidney(1)|central_nervous_system(1)|pancreas(1)	5	all_cancers(97;2.31e-11)|all_epithelial(106;1.58e-09)|Lung NSC(106;0.00013)|all_lung(105;0.000374)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		OV - Ovarian serous cystadenocarcinoma(54;2.46e-41)|Epithelial(56;1.23e-39)|all cancers(56;1.12e-34)|Colorectal(110;0.055)|BRCA - Breast invasive adenocarcinoma(115;0.18)			ACCTGGCGTCGGGGAGACAGG	0.622													14	22	---	---	---	---	PASS
EPPK1	83481	broad.mit.edu	37	8	144940426	144940426	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:144940426C>T	uc003zaa.1	-	2	15019	c.15006G>A	c.(15004-15006)CGG>CGA	p.R5002R		NM_031308	NP_112598	P58107	EPIPL_HUMAN	epiplakin 1	5002	Plectin 63.					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)			TGCCGTGCTCCCGGACGATGA	0.711													9	158	---	---	---	---	PASS
MAF1	84232	broad.mit.edu	37	8	145160625	145160625	+	Silent	SNP	C	T	T	rs139701481		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:145160625C>T	uc003zbc.1	+	2	540	c.39C>T	c.(37-39)AAC>AAT	p.N13N	SHARPIN_uc003zba.2_5'Flank|SHARPIN_uc003zbb.2_5'Flank|KIAA1875_uc003zbd.3_5'Flank	NM_032272	NP_115648	Q9H063	MAF1_HUMAN	MAF1 protein	13					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)			AAGCCATCAACTCACAGCTGA	0.582													11	57	---	---	---	---	PASS
FBXL6	26233	broad.mit.edu	37	8	145579815	145579815	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:145579815C>T	uc003zcb.2	-	8	1310	c.1285G>A	c.(1285-1287)GAG>AAG	p.E429K	C8ORFK29_uc011llb.1_5'Flank|C8ORFK29_uc010mfw.2_5'Flank|C8ORFK29_uc003zby.3_5'Flank|FBXL6_uc003zbz.2_Missense_Mutation_p.E156K|FBXL6_uc003zca.2_Missense_Mutation_p.E423K|FBXL6_uc010mfx.2_Missense_Mutation_p.E190K|GPR172A_uc003zcc.1_5'Flank|GPR172A_uc003zcd.1_5'Flank|GPR172A_uc003zce.1_5'Flank|GPR172A_uc010mfy.1_5'Flank|GPR172A_uc003zcf.1_5'Flank|GPR172A_uc011llc.1_5'Flank	NM_012162	NP_036294	Q8N531	FBXL6_HUMAN	F-box and leucine-rich repeat protein 6 isoform	429	LRR 9.				proteolysis		ubiquitin-protein ligase activity			ovary(1)|lung(1)	2	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;4.43e-40)|Epithelial(56;1.48e-39)|all cancers(56;1.49e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0441)|Colorectal(110;0.055)			GGGCTGCCCTCCTTGGCTAGA	0.577													23	45	---	---	---	---	PASS
VPS28	51160	broad.mit.edu	37	8	145649603	145649603	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:145649603C>T	uc003zcr.1	-	7	504	c.451G>A	c.(451-453)GAT>AAT	p.D151N	VPS28_uc003zcs.1_Missense_Mutation_p.D151N|VPS28_uc003zct.1_Missense_Mutation_p.D151N	NM_016208	NP_057292	Q9UK41	VPS28_HUMAN	vacuolar protein sorting 28 isoform 1	151	VPS28 C-terminal.				cellular membrane organization|endosome transport|negative regulation of protein ubiquitination|protein transport	cytosol|late endosome membrane|plasma membrane	protein 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;1.08e-41)|Epithelial(56;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			CGCACCTCATCCATGGCGCGG	0.682													10	18	---	---	---	---	PASS
NFKBIL2	4796	broad.mit.edu	37	8	145666202	145666202	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:145666202G>A	uc011llg.1	-	9	1078	c.1063C>T	c.(1063-1065)CAC>TAC	p.H355Y		NM_013432	NP_038460	Q96HA7	TONSL_HUMAN	NF-kappa-B inhibitor-like protein 2	355	TPR 8.				cytoplasmic sequestering of transcription factor|double-strand break repair via homologous recombination|replication fork processing	cytoplasm|nuclear replication fork	histone binding|transcription corepressor activity				0	all_cancers(97;4.61e-11)|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;1.08e-41)|Epithelial(56;8.67e-41)|all cancers(56;1.1e-35)|BRCA - Breast invasive adenocarcinoma(115;0.035)|Colorectal(110;0.055)			AGGGACACGTGGATGATGGCC	0.667													13	29	---	---	---	---	PASS
ZNF517	340385	broad.mit.edu	37	8	146032912	146032912	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:146032912C>T	uc003zed.1	+	5	718	c.611C>T	c.(610-612)CCC>CTC	p.P204L	ZNF517_uc010mgd.1_Missense_Mutation_p.P110L|ZNF517_uc003zee.1_RNA|ZNF517_uc011llm.1_Missense_Mutation_p.P110L|ZNF517_uc003zef.1_Intron	NM_213605	NP_998770	Q6ZMY9	ZN517_HUMAN	zinc finger protein 517	204					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_cancers(97;1.03e-11)|all_epithelial(106;6.69e-11)|Lung NSC(106;4.08e-05)|all_lung(105;0.000125)|Ovarian(258;0.0173)|Acute lymphoblastic leukemia(118;0.155)		Epithelial(56;5.47e-39)|OV - Ovarian serous cystadenocarcinoma(54;6.38e-39)|all cancers(56;5.47e-34)|BRCA - Breast invasive adenocarcinoma(115;0.0355)|Colorectal(110;0.055)			GGCGCCAAGCCCTTCCAGTGC	0.627													3	9	---	---	---	---	PASS
ZNF16	7564	broad.mit.edu	37	8	146157806	146157806	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:146157806C>A	uc003zet.2	-	4	554	c.367G>T	c.(367-369)GGC>TGC	p.G123C	ZNF16_uc003zeu.2_Missense_Mutation_p.G123C	NM_001029976	NP_001025147	P17020	ZNF16_HUMAN	zinc finger protein 16	123					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(5)	5	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)	Acute lymphoblastic leukemia(644;0.136)	Epithelial(56;3.45e-38)|all cancers(56;3.04e-33)|BRCA - Breast invasive adenocarcinoma(115;0.0424)|Colorectal(110;0.055)	GBM - Glioblastoma multiforme(99;0.02)|KIRC - Kidney renal clear cell carcinoma(644;0.0486)		AGCCTCCTGCCTTCGGGGACT	0.552													28	46	---	---	---	---	PASS
DOCK8	81704	broad.mit.edu	37	9	338996	338996	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:338996C>T	uc003zgf.2	+						DOCK8_uc011lls.1_Intron|DOCK8_uc010mgu.2_Intron|DOCK8_uc010mgv.2_Intron|DOCK8_uc003zgg.2_Intron|DOCK8_uc003zgh.2_Intron	NM_203447	NP_982272	Q8NF50	DOCK8_HUMAN	dedicator of cytokinesis 8						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)		TCTGACTTTTCTCTTGGCAGG	0.388													3	8	---	---	---	---	PASS
DOCK8	81704	broad.mit.edu	37	9	439280	439280	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:439280C>T	uc003zgf.2	+	40	5227	c.5115C>T	c.(5113-5115)GTC>GTT	p.V1705V	DOCK8_uc010mgu.2_Silent_p.V1007V|DOCK8_uc010mgv.2_Silent_p.V1605V|DOCK8_uc003zgk.2_Silent_p.V1163V	NM_203447	NP_982272	Q8NF50	DOCK8_HUMAN	dedicator of cytokinesis 8	1705	DHR-2.				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)		AGTCTGTGGTCTCTGAGGACA	0.567													16	11	---	---	---	---	PASS
DMRT1	1761	broad.mit.edu	37	9	894200	894200	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:894200G>A	uc003zgv.2	+						DMRT1_uc003zgu.1_Silent_p.*276*	NM_021951	NP_068770	Q9Y5R6	DMRT1_HUMAN	doublesex and mab-3 related transcription factor						cell differentiation|male gonad development|sex determination	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1		all_lung(10;2.66e-10)|Lung NSC(10;2.82e-10)|Breast(48;0.232)		Lung(218;0.037)		TGGCAGGTATGATATTAATTA	0.383													7	11	---	---	---	---	PASS
KIAA1432	57589	broad.mit.edu	37	9	5689954	5689954	+	Intron	SNP	T	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:5689954T>G	uc003zji.2	+						KIAA1432_uc003zjh.2_Intron|KIAA1432_uc003zjl.3_Intron	NM_020829	NP_065880	Q4ADV7	RIC1_HUMAN	connexin 43-interacting protein 150 isoform a							integral to membrane					0		Acute lymphoblastic leukemia(23;0.154)		GBM - Glioblastoma multiforme(50;0.000525)|Lung(218;0.122)		AAATTTCTCTTTCAGACGGCA	0.299													9	6	---	---	---	---	PASS
KIAA1432	57589	broad.mit.edu	37	9	5753603	5753603	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:5753603C>T	uc003zji.2	+	13	1415	c.1322C>T	c.(1321-1323)TCT>TTT	p.S441F	KIAA1432_uc003zjh.2_Missense_Mutation_p.S441F|KIAA1432_uc003zjl.3_Intron|KIAA1432_uc003zjj.1_Intron	NM_020829	NP_065880	Q4ADV7	RIC1_HUMAN	connexin 43-interacting protein 150 isoform a	520						integral to membrane					0		Acute lymphoblastic leukemia(23;0.154)		GBM - Glioblastoma multiforme(50;0.000525)|Lung(218;0.122)		GCACATTACTCTTTACTCACC	0.303													6	13	---	---	---	---	PASS
KIAA2026	158358	broad.mit.edu	37	9	5920369	5920369	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:5920369A>G	uc003zjq.3	-	8	5843	c.5627T>C	c.(5626-5628)ATA>ACA	p.I1876T	KIAA2026_uc010mht.2_Missense_Mutation_p.I1051T	NM_001017969	NP_001017969	Q5HYC2	K2026_HUMAN	hypothetical protein LOC158358	1876										ovary(2)|central_nervous_system(1)	3		Acute lymphoblastic leukemia(23;0.158)		GBM - Glioblastoma multiforme(50;0.00155)|Lung(218;0.124)		ATTGATGACTATTTTTTGCTG	0.473													77	65	---	---	---	---	PASS
IL33	90865	broad.mit.edu	37	9	6251131	6251131	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:6251131G>A	uc003zjt.2	+						IL33_uc011lmg.1_Intron|IL33_uc011lmh.1_Intron|IL33_uc003zju.1_Intron	NM_033439	NP_254274	O95760	IL33_HUMAN	interleukin 33 precursor						positive regulation of chemokine secretion|positive regulation of inflammatory response|positive regulation of macrophage activation|positive regulation of transcription from RNA polymerase II promoter	extracellular space	cytokine activity				0		Acute lymphoblastic leukemia(23;0.158)|Prostate(43;0.167)		GBM - Glioblastoma multiforme(50;0.0161)|Lung(218;0.105)		AATCCCATCCGGTCTGCAGGT	0.498													13	11	---	---	---	---	PASS
PTPRD	5789	broad.mit.edu	37	9	8486186	8486186	+	Silent	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:8486186T>C	uc003zkk.2	-	27	3342	c.2631A>G	c.(2629-2631)GAA>GAG	p.E877E	PTPRD_uc003zkp.2_Intron|PTPRD_uc003zkq.2_Intron|PTPRD_uc003zkr.2_Intron|PTPRD_uc003zks.2_Intron|PTPRD_uc003zkl.2_Silent_p.E868E|PTPRD_uc003zkm.2_Silent_p.E864E|PTPRD_uc003zkn.2_Intron|PTPRD_uc003zko.2_Intron	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	877	Fibronectin type-III 6.|Extracellular (Potential).				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)		TAAAGTGATCTTCTTTTTCAG	0.488										TSP Lung(15;0.13)			13	9	---	---	---	---	PASS
PTPRD	5789	broad.mit.edu	37	9	8500786	8500786	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:8500786C>T	uc003zkk.2	-	23	2807	c.2096G>A	c.(2095-2097)AGC>AAC	p.S699N	PTPRD_uc003zkp.2_Intron|PTPRD_uc003zkq.2_Intron|PTPRD_uc003zkr.2_Intron|PTPRD_uc003zks.2_Intron|PTPRD_uc003zkl.2_Missense_Mutation_p.S699N|PTPRD_uc003zkm.2_Missense_Mutation_p.S686N|PTPRD_uc003zkn.2_Intron|PTPRD_uc003zko.2_Intron	NM_002839	NP_002830	P23468	PTPRD_HUMAN	protein tyrosine phosphatase, receptor type, D	699	Fibronectin type-III 4.|Extracellular (Potential).				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)		CACGGACAAGCTCTCAGGGCC	0.493										TSP Lung(15;0.13)			22	28	---	---	---	---	PASS
TYRP1	7306	broad.mit.edu	37	9	12708128	12708128	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:12708128G>A	uc003zkv.3	+	7	1571	c.1393G>A	c.(1393-1395)GAA>AAA	p.E465K		NM_000550	NP_000541	P17643	TYRP1_HUMAN	tyrosinase-related protein 1 precursor	465	Lumenal, melanosome (Potential).				melanin biosynthetic process	clathrin-coated endocytic vesicle membrane|endosome membrane|integral to membrane|melanosome membrane	copper ion binding|oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, another compound as one donor, and incorporation of one atom of oxygen|protein heterodimerization activity|protein homodimerization activity			lung(1)	1		all_cancers(3;3.1e-05)|all_lung(3;1.7e-06)|Lung NSC(3;2.09e-06)|all_epithelial(3;0.000695)|all_hematologic(3;0.0033)|Acute lymphoblastic leukemia(23;0.0744)		GBM - Glioblastoma multiforme(50;9.85e-06)		ATACACTTATGAAATTCAATG	0.378									Oculocutaneous_Albinism				11	16	---	---	---	---	PASS
FREM1	158326	broad.mit.edu	37	9	14868822	14868822	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:14868822G>A	uc003zlm.2	-	2	744	c.154C>T	c.(154-156)CCT>TCT	p.P52S	FREM1_uc010mic.2_RNA	NM_144966	NP_659403	Q5H8C1	FREM1_HUMAN	FRAS1 related extracellular matrix 1 precursor	52					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)		TTCTCTTTAGGGATGGCAAAC	0.537													5	7	---	---	---	---	PASS
BNC2	54796	broad.mit.edu	37	9	16419455	16419455	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:16419455G>A	uc003zml.2	-	7	2972	c.2832C>T	c.(2830-2832)TCC>TCT	p.S944S	BNC2_uc011lmw.1_Silent_p.S849S|BNC2_uc003zmm.2_3'UTR|BNC2_uc011lmv.1_3'UTR|BNC2_uc003zmj.2_3'UTR|BNC2_uc003zmk.2_RNA|BNC2_uc003zmi.2_Silent_p.S731S	NM_017637	NP_060107	Q6ZN30	BNC2_HUMAN	basonuclin 2	944					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)		CGTTCAGGTGGGAGTCTTCAG	0.572													17	15	---	---	---	---	PASS
ADAMTSL1	92949	broad.mit.edu	37	9	18681849	18681849	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:18681849G>A	uc003zne.3	+	12	1508	c.1381G>A	c.(1381-1383)GTC>ATC	p.V461I	ADAMTSL1_uc003znc.3_Missense_Mutation_p.V461I	NM_001040272	NP_001035362	Q8N6G6	ATL1_HUMAN	ADAMTS-like 1 isoform 4 precursor	461	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)		ATACCGTGTGGTCCTCTGCAT	0.502													70	70	---	---	---	---	PASS
DENND4C	55667	broad.mit.edu	37	9	19300180	19300180	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:19300180C>T	uc003znq.2	+						DENND4C_uc011lnc.1_Intron	NM_017925	NP_060395	Q5VZ89	DEN4C_HUMAN	DENN/MADD domain containing 4C							integral to membrane				ovary(1)|skin(1)	2						CTTTTTTTTCCCTAGTGGAGC	0.348													14	13	---	---	---	---	PASS
DENND4C	55667	broad.mit.edu	37	9	19325943	19325943	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:19325943C>T	uc003znq.2	+	10	1285	c.1252C>T	c.(1252-1254)CCT>TCT	p.P418S	DENND4C_uc011lnc.1_5'UTR	NM_017925	NP_060395	Q5VZ89	DEN4C_HUMAN	DENN/MADD domain containing 4C	418						integral to membrane				ovary(1)|skin(1)	2						CTAGTTGTTTCCTGATAAAGG	0.279													14	18	---	---	---	---	PASS
IFNA10	3446	broad.mit.edu	37	9	21206665	21206665	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:21206665C>T	uc003zoq.1	-	1	478	c.432G>A	c.(430-432)AGG>AGA	p.R144R	IFNA14_uc003zoo.1_Intron	NM_002171	NP_002162	P01566	IFN10_HUMAN	interferon, alpha 10 precursor	144					blood coagulation|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	extracellular space	cytokine activity|cytokine receptor binding				0				Lung(24;1.26e-23)|LUSC - Lung squamous cell carcinoma(38;1.4e-13)|OV - Ovarian serous cystadenocarcinoma(39;0.17)		GGAAGTATTTCCTCACAGCCA	0.463													69	62	---	---	---	---	PASS
CDKN2A	1029	broad.mit.edu	37	9	21968243	21968243	+	Intron	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:21968243T>A	uc003zpk.2	-						MTAP_uc003zpi.1_Intron|CDKN2A_uc003zpj.2_Intron|CDKN2A_uc010miu.2_Intron|CDKN2A_uc003zpl.2_Intron	NM_000077	NP_000068	P42771	CD2A1_HUMAN	cyclin-dependent kinase inhibitor 2A isoform 1						cell cycle arrest|cell cycle checkpoint|G1 phase of mitotic cell cycle|G1/S transition of mitotic cell cycle|induction of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of cell-matrix adhesion|negative regulation of cyclin-dependent protein kinase activity|negative regulation of NF-kappaB transcription factor activity|positive regulation of macrophage apoptosis|positive regulation of smooth muscle cell apoptosis|Ras protein signal transduction|replicative senescence	cytosol|nucleus	cyclin-dependent protein kinase inhibitor activity|NF-kappaB binding|protein binding|protein binding|protein kinase binding	p.0?(1112)|p.?(7)		haematopoietic_and_lymphoid_tissue(647)|skin(419)|upper_aerodigestive_tract(414)|central_nervous_system(381)|lung(325)|pancreas(244)|oesophagus(230)|urinary_tract(225)|pleura(94)|liver(91)|soft_tissue(79)|bone(77)|ovary(76)|biliary_tract(71)|stomach(46)|breast(46)|kidney(39)|NS(28)|thyroid(24)|cervix(23)|meninges(18)|genital_tract(15)|endometrium(13)|prostate(11)|autonomic_ganglia(10)|salivary_gland(10)|large_intestine(9)|adrenal_gland(6)|eye(4)|vulva(2)|small_intestine(1)	3678		all_cancers(5;0)|Acute lymphoblastic leukemia(3;0)|all_hematologic(3;0)|all_epithelial(2;2.37e-290)|Lung NSC(2;1.26e-139)|all_lung(2;4.48e-131)|Glioma(2;3.26e-60)|all_neural(2;2.1e-52)|Renal(3;1.07e-46)|Esophageal squamous(3;3.83e-46)|Melanoma(2;2.74e-34)|Breast(3;1.14e-11)|Ovarian(3;0.000128)|Hepatocellular(5;0.00162)|Colorectal(97;0.172)		all cancers(2;0)|GBM - Glioblastoma multiforme(3;0)|Lung(2;4.07e-74)|Epithelial(2;1.08e-61)|LUSC - Lung squamous cell carcinoma(2;3.82e-48)|LUAD - Lung adenocarcinoma(2;4.56e-26)|OV - Ovarian serous cystadenocarcinoma(39;7.64e-10)|BRCA - Breast invasive adenocarcinoma(2;5.01e-09)|STAD - Stomach adenocarcinoma(4;4.63e-07)|Kidney(2;5.79e-07)|KIRC - Kidney renal clear cell carcinoma(2;7.27e-07)|COAD - Colon adenocarcinoma(8;5.15e-05)		CGGGGATGTCTGCAGAGGGCA	0.537		17							Uveal_Melanoma_Familial|Familial_Malignant_Melanoma_and_Tumors_of_the_Nervous_System|Hereditary_Melanoma	HNSCC(2;<9.43e_08)|TSP Lung(5;3.83e-07)			14	10	---	---	---	---	PASS
TAF1L	138474	broad.mit.edu	37	9	32631621	32631621	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:32631621C>T	uc003zrg.1	-	1	4047	c.3957G>A	c.(3955-3957)GAG>GAA	p.E1319E	uc003zrh.1_5'Flank	NM_153809	NP_722516	Q8IZX4	TAF1L_HUMAN	TBP-associated factor RNA polymerase 1-like	1319					male meiosis|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation, DNA-dependent	transcription factor TFIID complex	DNA binding|histone acetyltransferase activity|protein serine/threonine kinase activity|TBP-class protein binding			lung(8)|skin(6)|central_nervous_system(4)|large_intestine(3)|ovary(2)|stomach(1)|breast(1)|pancreas(1)	26			LUSC - Lung squamous cell carcinoma(29;0.0181)	GBM - Glioblastoma multiforme(74;0.00301)		CCAACTCCTCCTCCTGCTCTT	0.423													63	50	---	---	---	---	PASS
BAG1	573	broad.mit.edu	37	9	33256816	33256816	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:33256816C>T	uc003zsj.2	-	5	957	c.868G>A	c.(868-870)GAG>AAG	p.E290K	SUGT1P1_uc010mjq.1_Intron|BAG1_uc003zsi.2_Missense_Mutation_p.E152K|BAG1_uc003zsk.2_Missense_Mutation_p.E116K	NM_004323	NP_004314	Q99933	BAG1_HUMAN	BCL2-associated athanogene isoform 1L	290	Interaction with PPP1R15A.|BAG.				anti-apoptosis|apoptosis|cell surface receptor linked signaling pathway|chaperone cofactor-dependent protein refolding	cytoplasm|intermediate filament cytoskeleton|nucleus	protein binding|receptor signaling protein activity			ovary(1)	1			LUSC - Lung squamous cell carcinoma(29;0.00506)			TCAATCTCCTCCAAGATCTTC	0.398													20	29	---	---	---	---	PASS
DNAI1	27019	broad.mit.edu	37	9	34513163	34513163	+	Missense_Mutation	SNP	G	A	A	rs79833450		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:34513163G>A	uc003zum.2	+	16	1736	c.1543G>A	c.(1543-1545)GGC>AGC	p.G515S		NM_012144	NP_036276	Q9UI46	DNAI1_HUMAN	dynein, axonemal, intermediate chain 1	515			G -> S (in KTGS).		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)		GTTCCTAGTGGGCACAGAGGA	0.537									Kartagener_syndrome				38	59	---	---	---	---	PASS
TESK1	7016	broad.mit.edu	37	9	35606845	35606845	+	Silent	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:35606845G>T	uc003zxa.2	+	4	738	c.402G>T	c.(400-402)GGG>GGT	p.G134G	TESK1_uc003zwz.1_RNA|TESK1_uc010mks.2_Missense_Mutation_p.G2V	NM_006285	NP_006276	Q15569	TESK1_HUMAN	testis-specific protein kinase 1	134	Protein kinase.				cell junction assembly|spermatogenesis	cytosol	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			stomach(2)|breast(2)|lung(1)|ovary(1)|skin(1)	7			Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			ATATGAATGGGGGGACATTGG	0.388													4	20	---	---	---	---	PASS
TLN1	7094	broad.mit.edu	37	9	35708459	35708459	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:35708459G>A	uc003zxt.2	-	34	4703	c.4349C>T	c.(4348-4350)TCT>TTT	p.S1450F		NM_006289	NP_006280	Q9Y490	TLN1_HUMAN	talin 1	1450	Interaction with SYNM.				axon guidance|cell adhesion|cell-cell junction assembly|cellular component movement|cytoskeletal anchoring at plasma membrane|muscle contraction|platelet activation|platelet degranulation	actin cytoskeleton|centrosome|cytosol|extracellular region|focal adhesion|intracellular membrane-bounded organelle|ruffle membrane	actin binding|insulin receptor binding|LIM domain binding|structural constituent of cytoskeleton|vinculin binding			lung(7)|breast(3)|ovary(2)|central_nervous_system(1)	13	all_epithelial(49;0.167)		Lung(28;0.00276)|LUSC - Lung squamous cell carcinoma(32;0.00418)|STAD - Stomach adenocarcinoma(86;0.194)			ATTGGGGTCAGAGACACCAAC	0.522													26	14	---	---	---	---	PASS
PAX5	5079	broad.mit.edu	37	9	36923392	36923392	+	Silent	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:36923392C>A	uc003zzo.1	-	7	1318	c.870G>T	c.(868-870)GGG>GGT	p.G290G	PAX5_uc011lpt.1_Silent_p.G86G|PAX5_uc011lpu.1_Intron|PAX5_uc011lpv.1_Intron|PAX5_uc011lpw.1_Silent_p.G290G|PAX5_uc011lpx.1_Silent_p.G224G|PAX5_uc011lpy.1_Silent_p.G182G|PAX5_uc010mls.1_Intron|PAX5_uc011lpz.1_Silent_p.G247G|PAX5_uc011lqa.1_Silent_p.G182G|PAX5_uc010mlq.1_Intron|PAX5_uc011lqb.1_Intron|PAX5_uc010mlo.1_Silent_p.G290G|PAX5_uc010mlp.1_Silent_p.G290G|PAX5_uc011lqc.1_Silent_p.G247G|PAX5_uc010mlr.1_Intron	NM_016734	NP_057953	Q02548	PAX5_HUMAN	paired box 5	290					cell differentiation|humoral immune response|nervous system development|organ morphogenesis|spermatogenesis|transcription from RNA polymerase II promoter	nucleus	DNA binding	p.?(23)	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)		GCACACTGCTCCCGATGTCAG	0.607			T|Mis|D|F|S	IGH@|ETV6|PML|FOXP1|ZNF521|ELN	NHL|ALL|B-ALL								5	11	---	---	---	---	PASS
PIP5K1B	8395	broad.mit.edu	37	9	71503934	71503934	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:71503934A>G	uc004agu.2	+	7	661	c.356A>G	c.(355-357)AAC>AGC	p.N119S	PIP5K1B_uc011lrq.1_Missense_Mutation_p.N119S|PIP5K1B_uc004agv.2_RNA	NM_003558	NP_003549	O14986	PI51B_HUMAN	phosphatidylinositol-4-phosphate 5-kinase, type	119	PIPK.					endomembrane system|membrane|uropod	1-phosphatidylinositol-4-phosphate 5-kinase activity|ATP binding|protein binding			stomach(1)	1				Lung(182;0.133)		GAACTGTCTAACCCTGGAGCC	0.388													23	22	---	---	---	---	PASS
TJP2	9414	broad.mit.edu	37	9	71864304	71864304	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:71864304C>T	uc004ahe.2	+	20	3094	c.2894C>T	c.(2893-2895)CCC>CTC	p.P965L	TJP2_uc011lrs.1_Intron|TJP2_uc004ahf.2_Intron|TJP2_uc011lru.1_Intron|TJP2_uc011lrv.1_Missense_Mutation_p.P987L|TJP2_uc010mom.1_Intron	NM_004817	NP_004808	Q9UDY2	ZO2_HUMAN	tight junction protein 2 (zona occludens 2)	965					cellular component disassembly involved in apoptosis	adherens junction|cytoplasm|nucleus|tight junction	guanylate kinase activity|protein binding				0						ATAAGGAAACCCAGCCCAGAG	0.522													6	6	---	---	---	---	PASS
C9orf135	138255	broad.mit.edu	37	9	72471459	72471459	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:72471459C>T	uc004ahl.2	+						C9orf135_uc011lrw.1_Intron|C9orf135_uc010moq.2_Intron|C9orf135_uc011lrx.1_Intron|C9orf135_uc010mop.2_Intron	NM_001010940	NP_001010940	Q5VTT2	CI135_HUMAN	hypothetical protein LOC138255							integral to membrane				ovary(1)	1						TATGTGGCTTCTATGTTTCCA	0.308													11	5	---	---	---	---	PASS
TRPM3	80036	broad.mit.edu	37	9	73213401	73213401	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:73213401G>A	uc004aid.2	-	20	3190	c.2946C>T	c.(2944-2946)ATC>ATT	p.I982I	TRPM3_uc004ahu.2_Silent_p.I812I|TRPM3_uc004ahv.2_Silent_p.I784I|TRPM3_uc004ahw.2_Silent_p.I854I|TRPM3_uc004ahx.2_Silent_p.I841I|TRPM3_uc004ahy.2_Silent_p.I844I|TRPM3_uc004ahz.2_Silent_p.I831I|TRPM3_uc004aia.2_Silent_p.I829I|TRPM3_uc004aib.2_Silent_p.I819I|TRPM3_uc004aic.2_Silent_p.I982I	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,	1007	Helical; (Potential).					integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						CTAGGAGACGGATATACCAGT	0.453													52	38	---	---	---	---	PASS
TRPM3	80036	broad.mit.edu	37	9	73736271	73736271	+	5'UTR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:73736271C>T	uc004aid.2	-	1					TRPM3_uc004aic.2_5'UTR|TRPM3_uc010mor.2_5'UTR|TRPM3_uc004aii.2_Intron	NM_001007471	NP_001007472	Q9HCF6	TRPM3_HUMAN	transient receptor potential cation channel,							integral to membrane	calcium channel activity			ovary(3)|pancreas(2)|central_nervous_system(2)|skin(2)	9						GCTCTGGCATCCCATGGTCAT	0.498													12	14	---	---	---	---	PASS
TMEM2	23670	broad.mit.edu	37	9	74332991	74332991	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:74332991G>A	uc011lsa.1	-	13	2812	c.2272C>T	c.(2272-2274)CGA>TGA	p.R758*	TMEM2_uc010mos.2_Nonsense_Mutation_p.R695*|TMEM2_uc011lsb.1_RNA	NM_013390	NP_037522	Q9UHN6	TMEM2_HUMAN	transmembrane protein 2 isoform a	758						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)		TGATGAGGTCGAAATCTAGGG	0.338													17	22	---	---	---	---	PASS
TMEM2	23670	broad.mit.edu	37	9	74349793	74349793	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:74349793G>A	uc011lsa.1	-	6	1862	c.1322C>T	c.(1321-1323)TCC>TTC	p.S441F	TMEM2_uc010mos.2_Intron|TMEM2_uc011lsb.1_RNA	NM_013390	NP_037522	Q9UHN6	TMEM2_HUMAN	transmembrane protein 2 isoform a	441						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)		TTGGTACATGGAATAGTCTGT	0.438													47	38	---	---	---	---	PASS
TMC1	117531	broad.mit.edu	37	9	75355088	75355088	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:75355088G>A	uc004aiz.1	+	9	956	c.416G>A	c.(415-417)GGA>GAA	p.G139E	TMC1_uc010moz.1_Missense_Mutation_p.G97E|TMC1_uc004aja.1_RNA|TMC1_uc004ajb.1_RNA|TMC1_uc004ajc.1_5'UTR|TMC1_uc010mpa.1_5'UTR	NM_138691	NP_619636	Q8TDI8	TMC1_HUMAN	transmembrane channel-like 1	139	Cytoplasmic (Potential).|Arg/Asp/Glu/Lys-rich (highly charged).				sensory perception of sound	integral to membrane				ovary(1)	1						AAAGGAAAAGGAAAACGGTGG	0.303													12	9	---	---	---	---	PASS
TMC1	117531	broad.mit.edu	37	9	75387402	75387402	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:75387402G>A	uc004aiz.1	+	13	1355	c.815G>A	c.(814-816)AGG>AAG	p.R272K	TMC1_uc010moz.1_Missense_Mutation_p.R230K|TMC1_uc004aja.1_RNA|TMC1_uc004ajb.1_RNA|TMC1_uc004ajc.1_Missense_Mutation_p.R126K|TMC1_uc010mpa.1_Missense_Mutation_p.R126K	NM_138691	NP_619636	Q8TDI8	TMC1_HUMAN	transmembrane channel-like 1	272	Extracellular (Potential).				sensory perception of sound	integral to membrane				ovary(1)	1						ATGAATTTCAGGTTGCCGCTC	0.393													51	36	---	---	---	---	PASS
TMC1	117531	broad.mit.edu	37	9	75420349	75420349	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:75420349C>T	uc004aiz.1	+	18	2158	c.1618C>T	c.(1618-1620)CTC>TTC	p.L540F	TMC1_uc010moz.1_Missense_Mutation_p.L498F|TMC1_uc004aja.1_RNA|TMC1_uc004ajb.1_RNA|TMC1_uc004ajc.1_Missense_Mutation_p.L394F|TMC1_uc010mpa.1_Missense_Mutation_p.L394F	NM_138691	NP_619636	Q8TDI8	TMC1_HUMAN	transmembrane channel-like 1	540	Cytoplasmic (Potential).				sensory perception of sound	integral to membrane				ovary(1)	1						CGTCACAATCCTCATTGGGGA	0.403													37	53	---	---	---	---	PASS
RORB	6096	broad.mit.edu	37	9	77249547	77249547	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:77249547G>A	uc004aji.2	+	3	176	c.127G>A	c.(127-129)GGA>AGA	p.G43R	RORB_uc004ajh.2_Missense_Mutation_p.G32R	NM_006914	NP_008845	Q92753	RORB_HUMAN	RAR-related orphan receptor B	43	Nuclear receptor.				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						TTCCCTCAAGGGATTCTTTAG	0.408													8	6	---	---	---	---	PASS
RORB	6096	broad.mit.edu	37	9	77282698	77282698	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:77282698C>T	uc004aji.2	+						RORB_uc004ajh.2_Intron	NM_006914	NP_008845	Q92753	RORB_HUMAN	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						TTTTCTTCTTCCTTTATAGGT	0.373													10	17	---	---	---	---	PASS
C9orf41	138199	broad.mit.edu	37	9	77613660	77613660	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:77613660G>A	uc004ajq.2	-	5	917	c.764C>T	c.(763-765)CCT>CTT	p.P255L	C9orf41_uc011lsi.1_RNA	NM_152420	NP_689633	Q8N4J0	CI041_HUMAN	hypothetical protein LOC138199	255										ovary(1)|skin(1)	2						ATGGATCCAAGGATAAAGTTT	0.348													21	13	---	---	---	---	PASS
PCSK5	5125	broad.mit.edu	37	9	78804556	78804556	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:78804556C>T	uc004ajz.2	+	20	3058	c.2520C>T	c.(2518-2520)ATC>ATT	p.I840I	PCSK5_uc004aka.2_RNA|PCSK5_uc004akb.2_Silent_p.I114I	NM_006200	NP_006191	Q92824	PCSK5_HUMAN	proprotein convertase subtilisin/kexin type 5	840	CRM (Cys-rich motif).				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						GATGTGATATCAGTTGTTTGA	0.393													22	16	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	9	78947339	78947339	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:78947339C>T	uc004akc.1	+											Homo sapiens cDNA FLJ16215 fis, clone CTONG2025610, moderately similar to PC6B.																		CATTTTTTCTCCCATGACAGA	0.537													11	10	---	---	---	---	PASS
PRUNE2	158471	broad.mit.edu	37	9	79321662	79321662	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:79321662G>A	uc010mpk.2	-	8	5652	c.5528C>T	c.(5527-5529)CCA>CTA	p.P1843L	PRUNE2_uc004akj.3_5'Flank|PRUNE2_uc010mpl.1_5'Flank	NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	1843					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						CCTTTCAAATGGACTTTCAAT	0.473													10	14	---	---	---	---	PASS
PRUNE2	158471	broad.mit.edu	37	9	79324429	79324429	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:79324429G>A	uc010mpk.2	-	8	2885	c.2761C>T	c.(2761-2763)CTT>TTT	p.L921F		NM_015225	NP_056040	Q8WUY3	PRUN2_HUMAN	prune homolog 2	921					apoptosis|G1 phase|induction of apoptosis	cytoplasm	metal ion binding|pyrophosphatase activity				0						TCCTCAAAAAGGTTCCAGGAA	0.398													66	53	---	---	---	---	PASS
VPS13A	23230	broad.mit.edu	37	9	79862249	79862249	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:79862249C>T	uc004akr.2	+	20	2235	c.1975C>T	c.(1975-1977)CCA>TCA	p.P659S	VPS13A_uc004akp.3_Missense_Mutation_p.P659S|VPS13A_uc004akq.3_Missense_Mutation_p.P659S|VPS13A_uc004aks.2_Missense_Mutation_p.P659S	NM_033305	NP_150648	Q96RL7	VP13A_HUMAN	vacuolar protein sorting 13A isoform A	659					Golgi to endosome transport|protein transport	intracellular	protein binding			pancreas(3)|skin(3)|ovary(2)|large_intestine(1)|central_nervous_system(1)	10						TATTATTGTCCCACAAGATGG	0.289													12	25	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	9	84676160	84676160	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:84676160C>T	uc010mpu.1	-	3	268	c.265G>A	c.(265-267)GAG>AAG	p.E89K		NM_001164339	NP_001157811			hypothetical protein LOC404770																		TCCATAGGCTCAAGAGAGGAC	0.562													57	51	---	---	---	---	PASS
KIF27	55582	broad.mit.edu	37	9	86468574	86468574	+	Silent	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:86468574A>G	uc004ana.2	-	15	3471	c.3327T>C	c.(3325-3327)ATT>ATC	p.I1109I	KIF27_uc010mpw.2_Silent_p.I1043I|KIF27_uc010mpx.2_Silent_p.I1012I	NM_017576	NP_060046	Q86VH2	KIF27_HUMAN	kinesin family member 27	1109					cilium assembly|microtubule-based movement	cilium|cytoplasm|microtubule	ATP binding|microtubule motor activity			lung(4)|skin(1)	5						GAATAGTTCTAATCTCAACAG	0.363													20	19	---	---	---	---	PASS
NTRK2	4915	broad.mit.edu	37	9	87338487	87338487	+	Splice_Site	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:87338487G>A	uc004aoa.1	+	9	1522	c.584_splice	c.e9-1	p.G195_splice	NTRK2_uc004anv.1_Splice_Site_p.G195_splice|NTRK2_uc004any.1_Splice_Site_p.G195_splice|NTRK2_uc004anz.1_Splice_Site_p.G195_splice|NTRK2_uc011lsz.1_Splice_Site_p.G195_splice|NTRK2_uc011lta.1_Splice_Site_p.G195_splice|NTRK2_uc004aob.1_Splice_Site_p.G195_splice|NTRK2_uc011ltb.1_Splice_Site_p.G39_splice	NM_001018064	NP_001018074	Q16620	NTRK2_HUMAN	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						TTGTTCCATAGGTTTGCCATC	0.368										TSP Lung(25;0.17)			16	16	---	---	---	---	PASS
NFIL3	4783	broad.mit.edu	37	9	94172935	94172935	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:94172935G>A	uc004arh.2	-	2	477	c.82C>T	c.(82-84)CTT>TTT	p.L28F		NM_005384	NP_005375	Q16649	NFIL3_HUMAN	nuclear factor, interleukin 3 regulated	28					circadian rhythm|immune response|transcription from RNA polymerase II promoter	nucleus	protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity				0						GCAGAATTAAGGACCATCATC	0.468													25	31	---	---	---	---	PASS
ROR2	4920	broad.mit.edu	37	9	94495518	94495518	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:94495518G>A	uc004arj.1	-	6	1022	c.823C>T	c.(823-825)CCG>TCG	p.P275S	ROR2_uc004ari.1_Missense_Mutation_p.P135S|ROR2_uc004ark.2_Missense_Mutation_p.P275S	NM_004560	NP_004551	Q01974	ROR2_HUMAN	receptor tyrosine kinase-like orphan receptor 2	275	FZ.|Extracellular (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						AGGATGAGCGGGTTGGAGCGG	0.677													5	4	---	---	---	---	PASS
HEMGN	55363	broad.mit.edu	37	9	100692960	100692960	+	Silent	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:100692960G>T	uc004axy.2	-	3	825	c.717C>A	c.(715-717)CCC>CCA	p.P239P	HEMGN_uc004axz.2_Silent_p.P239P	NM_197978	NP_932095	Q9BXL5	HEMGN_HUMAN	hemogen	239					cell differentiation|multicellular organismal development					ovary(1)	1		Acute lymphoblastic leukemia(62;0.0559)				GAAGGATTTTGGGTACAGCAG	0.413													5	98	---	---	---	---	PASS
COL15A1	1306	broad.mit.edu	37	9	101806876	101806876	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:101806876C>T	uc004azb.1	+	25	2807	c.2601C>T	c.(2599-2601)ATC>ATT	p.I867I		NM_001855	NP_001846	P39059	COFA1_HUMAN	alpha 1 type XV collagen precursor	867	Triple-helical region 4 (COL4).				angiogenesis|cell differentiation|signal transduction	collagen type XV|extracellular space|integral to membrane	binding			ovary(6)	6		Acute lymphoblastic leukemia(62;0.0562)				CGGGTGCCATCCTGACAGAGG	0.502													5	10	---	---	---	---	PASS
C9orf30	91283	broad.mit.edu	37	9	103213214	103213214	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:103213214C>T	uc004baw.2	+	3	861	c.794C>T	c.(793-795)TCC>TTC	p.S265F	TMEFF1_uc004bay.1_Intron|C9orf30_uc004bax.2_RNA	NM_080655	NP_542386	Q96H12	CI030_HUMAN	hypothetical protein LOC91283	265										ovary(1)	1		Acute lymphoblastic leukemia(62;0.0527)				TGGCCTGTTTCCTCATTTAAC	0.418													18	10	---	---	---	---	PASS
LPPR1	54886	broad.mit.edu	37	9	104048415	104048415	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:104048415C>T	uc004bbb.2	+	4	681	c.282C>T	c.(280-282)TTC>TTT	p.F94F	LPPR1_uc011lvi.1_Silent_p.F70F|LPPR1_uc004bbc.2_Silent_p.F94F|LPPR1_uc010mtc.2_Silent_p.F78F	NM_207299	NP_997182	Q8TBJ4	LPPR1_HUMAN	plasticity related gene 3	94						integral to membrane	catalytic activity				0						CCATGTATTTCATAAAATCAA	0.373													23	19	---	---	---	---	PASS
BAAT	570	broad.mit.edu	37	9	104124868	104124868	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:104124868G>A	uc010mtd.2	-	4	1208	c.1099C>T	c.(1099-1101)CCC>TCC	p.P367S	BAAT_uc004bbd.3_Missense_Mutation_p.P367S	NM_001127610	NP_001121082	Q14032	BAAT_HUMAN	bile acid Coenzyme A: amino acid	367					acyl-CoA metabolic process|bile acid and bile salt transport|bile acid biosynthetic process|digestion|fatty acid metabolic process|glycine metabolic process	cytosol|peroxisomal matrix	carboxylesterase activity|glycine N-choloyltransferase activity|N-acyltransferase activity|palmitoyl-CoA hydrolase activity			ovary(1)|lung(1)|skin(1)	3		Acute lymphoblastic leukemia(62;0.0559)			Glycine(DB00145)	GGAGAATAGGGAGGTTCTATC	0.542													13	14	---	---	---	---	PASS
PPP3R2	5535	broad.mit.edu	37	9	104357047	104357047	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:104357047G>A	uc004bbr.2	-	1	237	c.166C>T	c.(166-168)CCG>TCG	p.P56S	GRIN3A_uc004bbp.1_Intron|GRIN3A_uc004bbq.1_Intron|PPP3R2_uc010mtf.1_Intron	NM_147180	NP_671709	Q96LZ3	CANB2_HUMAN	protein phosphatase 3 regulatory subunit B, beta	53	EF-hand 2.						calcium ion binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(62;0.0527)			Cyclosporine(DB00091)	CGCACCAACGGGTTGTGGCGC	0.557													24	12	---	---	---	---	PASS
SMC2	10592	broad.mit.edu	37	9	106875588	106875588	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:106875588C>T	uc004bbv.2	+						SMC2_uc004bbu.1_Intron|SMC2_uc004bbw.2_Intron|SMC2_uc011lvl.1_Intron|SMC2_uc010mth.1_Intron|SMC2_uc004bbx.2_Intron	NM_001042551	NP_001036016	O95347	SMC2_HUMAN	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						TTGCATTTTTCTGCCACAGGC	0.398													24	43	---	---	---	---	PASS
OR13C8	138802	broad.mit.edu	37	9	107332164	107332164	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:107332164C>T	uc011lvo.1	+	1	716	c.716C>T	c.(715-717)TCC>TTC	p.S239F		NM_001004483	NP_001004483	Q8NGS7	O13C8_HUMAN	olfactory receptor, family 13, subfamily C,	239	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						AAGGCCTTCTCCACCTGCTCA	0.408													15	27	---	---	---	---	PASS
ABCA1	19	broad.mit.edu	37	9	107651464	107651464	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:107651464G>A	uc004bcl.2	-	3	392	c.79C>T	c.(79-81)CTG>TTG	p.L27L	ABCA1_uc004bcm.2_5'UTR	NM_005502	NP_005493	O95477	ABCA1_HUMAN	ATP-binding cassette, sub-family A member 1	27	Helical; (Potential).				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)	GCCACTTCCAGCAGCAGCTGA	0.428													9	16	---	---	---	---	PASS
PALM2-AKAP2	445815	broad.mit.edu	37	9	112705264	112705264	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:112705264G>A	uc004bei.2	+	7	987	c.795G>A	c.(793-795)AAG>AAA	p.K265K	PALM2_uc004bef.2_Silent_p.K267K|PALM2_uc004beg.2_Silent_p.K233K|PALM2_uc004beh.3_Silent_p.K265K|PALM2-AKAP2_uc004bek.3_Intron|PALM2-AKAP2_uc004bej.3_Intron|PALM2-AKAP2_uc004bel.1_Intron	NM_001136562	NP_001130034	Q9Y2D5	AKAP2_HUMAN	A kinase (PRKA) anchor protein 2 isoform 2	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment							enzyme binding			ovary(3)|central_nervous_system(2)|skin(1)	6						GCCATCCCAAGGAACACATGC	0.512													11	21	---	---	---	---	PASS
SVEP1	79987	broad.mit.edu	37	9	113170096	113170096	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:113170096G>A	uc010mtz.2	-	38	8121	c.7784C>T	c.(7783-7785)ACC>ATC	p.T2595I	SVEP1_uc010mty.2_Missense_Mutation_p.T521I	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	2595	Sushi 20.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						CTCTTCACAGGTCTGCATGGC	0.448													43	48	---	---	---	---	PASS
SVEP1	79987	broad.mit.edu	37	9	113170641	113170641	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:113170641G>A	uc010mtz.2	-	38	7576	c.7239C>T	c.(7237-7239)TTC>TTT	p.F2413F	SVEP1_uc010mty.2_Silent_p.F339F	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	2413	Sushi 17.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						TTCCTCTTAGGAAAAACCCAC	0.478													20	27	---	---	---	---	PASS
SVEP1	79987	broad.mit.edu	37	9	113194190	113194190	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:113194190G>A	uc010mtz.2	-						SVEP1_uc010mty.2_5'Flank	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom						cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						ACATATATTGGTTACCTGCAC	0.353													18	22	---	---	---	---	PASS
SVEP1	79987	broad.mit.edu	37	9	113251945	113251945	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:113251945G>A	uc010mtz.2	-	9	2252	c.1915C>T	c.(1915-1917)CAT>TAT	p.H639Y	SVEP1_uc010mua.1_Missense_Mutation_p.H639Y|SVEP1_uc004beu.2_Missense_Mutation_p.H639Y	NM_153366	NP_699197	Q4LDE5	SVEP1_HUMAN	polydom	639	HYR 1.				cell adhesion	cytoplasm|extracellular region|membrane	calcium ion binding			ovary(7)	7						ACCTTGATATGGAAAATGCAG	0.284													11	18	---	---	---	---	PASS
LPAR1	1902	broad.mit.edu	37	9	113703745	113703745	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:113703745C>A	uc004bfa.2	-	4	1004	c.749G>T	c.(748-750)CGG>CTG	p.R250L	LPAR1_uc011lwm.1_Missense_Mutation_p.R251L|LPAR1_uc004bfb.2_Missense_Mutation_p.R250L|LPAR1_uc004bfc.2_Missense_Mutation_p.R250L|LPAR1_uc011lwn.1_Missense_Mutation_p.R232L|LPAR1_uc011lwo.1_Missense_Mutation_p.R251L|LPAR1_uc010mub.2_Missense_Mutation_p.R250L	NM_057159	NP_476500	Q92633	LPAR1_HUMAN	lysophosphatidic acid receptor 1	250	Cytoplasmic (Potential).				positive regulation of I-kappaB kinase/NF-kappaB cascade	cell surface|integral to plasma membrane				ovary(2)	2						CATGGTATCCCGATTCCGCCG	0.443													4	67	---	---	---	---	PASS
KIAA0368	23392	broad.mit.edu	37	9	114156585	114156585	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:114156585C>T	uc004bfe.1	-	27	3311	c.3311G>A	c.(3310-3312)GGA>GAA	p.G1104E		NM_001080398	NP_001073867			KIAA0368 protein												0						CACTTTGGCTCCTGGGGAAAA	0.373													6	7	---	---	---	---	PASS
KIAA0368	23392	broad.mit.edu	37	9	114206714	114206714	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:114206714G>A	uc004bfe.1	-	5	748	c.748C>T	c.(748-750)CCA>TCA	p.P250S	KIAA0368_uc010muc.1_Missense_Mutation_p.P72S	NM_001080398	NP_001073867			KIAA0368 protein												0						GTCTCTACTGGAAGTTGTATT	0.393													26	33	---	---	---	---	PASS
ZNF483	158399	broad.mit.edu	37	9	114304051	114304051	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:114304051G>A	uc004bff.2	+	6	1060	c.836G>A	c.(835-837)GGA>GAA	p.G279E	ZNF483_uc004bfg.2_Intron	NM_133464	NP_597721	Q8TF39	ZN483_HUMAN	zinc finger protein 483 isoform a	279					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1						GGTAATCAGGGAAATTCAAAA	0.423													34	26	---	---	---	---	PASS
ZNF483	158399	broad.mit.edu	37	9	114304335	114304335	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:114304335C>T	uc004bff.2	+	6	1344	c.1120C>T	c.(1120-1122)CTT>TTT	p.L374F	ZNF483_uc004bfg.2_Intron	NM_133464	NP_597721	Q8TF39	ZN483_HUMAN	zinc finger protein 483 isoform a	374					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1						CTCTTCAGCTCTTACTGAACA	0.418													37	23	---	---	---	---	PASS
COL27A1	85301	broad.mit.edu	37	9	117064382	117064382	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:117064382C>T	uc011lxl.1	+	56	4866	c.4866C>T	c.(4864-4866)ATC>ATT	p.I1622I	COL27A1_uc004bii.2_RNA	NM_032888	NP_116277	Q8IZC6	CORA1_HUMAN	collagen, type XXVII, alpha 1 precursor	1622					cell adhesion		extracellular matrix structural constituent			ovary(3)|skin(1)	4						GGGGTCCTATCCAATTGGTAA	0.562													29	24	---	---	---	---	PASS
PAPPA	5069	broad.mit.edu	37	9	118989746	118989746	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:118989746G>A	uc004bjn.2	+	6	2529	c.2148G>A	c.(2146-2148)GGG>GGA	p.G716G	PAPPA_uc011lxp.1_Silent_p.G411G|PAPPA_uc011lxq.1_Intron	NM_002581	NP_002572	Q13219	PAPP1_HUMAN	pregnancy-associated plasma protein A	716					cell differentiation|female pregnancy	cytoplasm|extracellular region|membrane	metalloendopeptidase activity|zinc ion binding			ovary(4)|skin(4)|pancreas(1)	9						GCCTGGAAGGGAGAATCCTGG	0.527													28	19	---	---	---	---	PASS
PHF19	26147	broad.mit.edu	37	9	123624866	123624866	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:123624866C>A	uc004bks.1	-	11	1383	c.1130G>T	c.(1129-1131)GGT>GTT	p.G377V	PHF19_uc011lyf.1_Missense_Mutation_p.G168V|PHF19_uc004bkr.2_RNA	NM_015651	NP_056466	Q5T6S3	PHF19_HUMAN	PHD finger protein 19 isoform a	377					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)|breast(1)	2						GAGCACTGACCCAGGCTTGCT	0.617													9	17	---	---	---	---	PASS
PHF19	26147	broad.mit.edu	37	9	123624867	123624867	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:123624867C>T	uc004bks.1	-	11	1382	c.1129G>A	c.(1129-1131)GGT>AGT	p.G377S	PHF19_uc011lyf.1_Missense_Mutation_p.G168S|PHF19_uc004bkr.2_RNA	NM_015651	NP_056466	Q5T6S3	PHF19_HUMAN	PHD finger protein 19 isoform a	377					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	nucleic acid binding|zinc ion binding			ovary(1)|breast(1)	2						AGCACTGACCCAGGCTTGCTC	0.622													9	17	---	---	---	---	PASS
PTGS1	5742	broad.mit.edu	37	9	125145854	125145854	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:125145854G>A	uc004bmg.1	+	8	964	c.829G>A	c.(829-831)GGC>AGC	p.G277S	PTGS1_uc011lys.1_Missense_Mutation_p.G252S|PTGS1_uc010mwb.1_Missense_Mutation_p.G168S|PTGS1_uc004bmf.1_Missense_Mutation_p.G277S|PTGS1_uc004bmh.1_Missense_Mutation_p.G168S|PTGS1_uc011lyt.1_Missense_Mutation_p.G168S	NM_000962	NP_000953	P23219	PGH1_HUMAN	prostaglandin-endoperoxide synthase 1 isoform 1	277					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)	CTACCCCCGAGGCATCCCGCC	0.632													9	12	---	---	---	---	PASS
OR1Q1	158131	broad.mit.edu	37	9	125377828	125377828	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:125377828G>A	uc011lyy.1	+	1	812	c.812G>A	c.(811-813)GGT>GAT	p.G271D		NM_012364	NP_036496	Q15612	OR1Q1_HUMAN	olfactory receptor, family 1, subfamily Q,	271	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GTGACCAAGGGTCGCATTATA	0.527													21	28	---	---	---	---	PASS
OR1B1	347169	broad.mit.edu	37	9	125391009	125391009	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:125391009G>A	uc011lyz.1	-	1	806	c.806C>T	c.(805-807)CCC>CTC	p.P269L		NM_001004450	NP_001004450	Q8NGR6	OR1B1_HUMAN	olfactory receptor, family 1, subfamily B,	269	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						GTTCTGGAAGGGAGGCTGGAA	0.512													17	17	---	---	---	---	PASS
PDCL	5082	broad.mit.edu	37	9	125585315	125585315	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:125585315G>A	uc004bmz.1	-	3	430	c.334C>T	c.(334-336)CAG>TAG	p.Q112*	PDCL_uc004bna.2_Nonsense_Mutation_p.Q112*	NM_005388	NP_005379	Q13371	PHLP_HUMAN	phosducin-like	112					signal transduction|visual perception						0						ATCTTCTCCTGGAGGTCTTTC	0.507													33	40	---	---	---	---	PASS
PDCL	5082	broad.mit.edu	37	9	125585316	125585316	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:125585316G>A	uc004bmz.1	-	3	429	c.333C>T	c.(331-333)CTC>CTT	p.L111L	PDCL_uc004bna.2_Silent_p.L111L	NM_005388	NP_005379	Q13371	PHLP_HUMAN	phosducin-like	111					signal transduction|visual perception						0						TCTTCTCCTGGAGGTCTTTCT	0.502													34	40	---	---	---	---	PASS
PPP6C	5537	broad.mit.edu	37	9	127912080	127912080	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:127912080G>A	uc004bpg.3	-	7	1011	c.790C>T	c.(790-792)CGT>TGT	p.R264C	PPP6C_uc010mwv.2_Missense_Mutation_p.R301C|PPP6C_uc010mww.2_Missense_Mutation_p.R242C|PPP6C_uc011lzr.1_Missense_Mutation_p.R117C	NM_002721	NP_002712	O00743	PPP6_HUMAN	protein phosphatase 6, catalytic subunit isoform	264					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						TTTCCACAACGATAGCAGTAA	0.403													8	14	---	---	---	---	PASS
RALGPS1	9649	broad.mit.edu	37	9	129975005	129975005	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:129975005C>T	uc004bqo.1	+						RALGPS1_uc011mac.1_Intron|RALGPS1_uc004bqq.3_Intron	NM_014636	NP_055451	Q5JS13	RGPS1_HUMAN	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						ACACGTAAGTCCCTTGAAAGG	0.562													8	9	---	---	---	---	PASS
SH2D3C	10044	broad.mit.edu	37	9	130507027	130507027	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:130507027C>T	uc004bsc.2	-	7	1758	c.1616G>A	c.(1615-1617)GGC>GAC	p.G539D	SH2D3C_uc010mxo.2_Missense_Mutation_p.G379D|SH2D3C_uc004bry.2_Missense_Mutation_p.G381D|SH2D3C_uc004brz.3_Missense_Mutation_p.G185D|SH2D3C_uc011mak.1_Missense_Mutation_p.G185D|SH2D3C_uc004bsa.2_Missense_Mutation_p.G382D|SH2D3C_uc004bsb.2_Missense_Mutation_p.G471D	NM_170600	NP_733745	Q8N5H7	SH2D3_HUMAN	SH2 domain containing 3C isoform a	539					JNK cascade|small GTPase mediated signal transduction	cytoplasm|membrane	guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			ovary(1)	1						GAAGGTCTTGCCCCAGTCCCC	0.597													41	59	---	---	---	---	PASS
FPGS	2356	broad.mit.edu	37	9	130569923	130569923	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:130569923G>A	uc004bsg.1	+	8	750	c.700G>A	c.(700-702)GAT>AAT	p.D234N	FPGS_uc004bsh.1_Missense_Mutation_p.D51N|FPGS_uc011mal.1_Missense_Mutation_p.D208N|FPGS_uc004bsi.1_Missense_Mutation_p.D184N	NM_004957	NP_004948	Q05932	FOLC_HUMAN	folylpolyglutamate synthase isoform a precursor	234					folic acid metabolic process|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|one-carbon metabolic process	cytosol|mitochondrial matrix	ATP binding|tetrahydrofolylpolyglutamate synthase activity				0					L-Glutamic Acid(DB00142)	CCTCCTGGGGGATACGGTGGA	0.458													4	7	---	---	---	---	PASS
GOLGA2	2801	broad.mit.edu	37	9	131038413	131038413	+	5'Flank	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:131038413G>A	uc011maw.1	-						GOLGA2_uc010mxw.2_5'Flank|GOLGA2_uc004bul.1_5'Flank|C9orf119_uc010mxx.1_5'Flank|C9orf119_uc004bup.2_5'Flank	NM_004486	NP_004477	Q08379	GOGA2_HUMAN	Golgi autoantigen, golgin subfamily a, 2							Golgi cisterna membrane	protein binding			ovary(1)	1						TGAAGCGGAAGGGGGCGTGGC	0.632													17	26	---	---	---	---	PASS
GOLGA2	2801	broad.mit.edu	37	9	131038414	131038414	+	5'Flank	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:131038414G>A	uc011maw.1	-						GOLGA2_uc010mxw.2_5'Flank|GOLGA2_uc004bul.1_5'Flank|C9orf119_uc010mxx.1_5'Flank|C9orf119_uc004bup.2_5'Flank	NM_004486	NP_004477	Q08379	GOGA2_HUMAN	Golgi autoantigen, golgin subfamily a, 2							Golgi cisterna membrane	protein binding			ovary(1)	1						GAAGCGGAAGGGGGCGTGGCT	0.632													15	25	---	---	---	---	PASS
GOLGA2	2801	broad.mit.edu	37	9	131038415	131038415	+	5'Flank	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:131038415G>A	uc011maw.1	-						GOLGA2_uc010mxw.2_5'Flank|GOLGA2_uc004bul.1_5'Flank|C9orf119_uc010mxx.1_5'Flank|C9orf119_uc004bup.2_5'Flank	NM_004486	NP_004477	Q08379	GOGA2_HUMAN	Golgi autoantigen, golgin subfamily a, 2							Golgi cisterna membrane	protein binding			ovary(1)	1						AAGCGGAAGGGGGCGTGGCTA	0.632													16	27	---	---	---	---	PASS
SLC27A4	10999	broad.mit.edu	37	9	131105494	131105494	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:131105494C>T	uc004but.2	+	2	367	c.83C>T	c.(82-84)TCC>TTC	p.S28F	SLC27A4_uc004buu.2_Silent_p.L55L	NM_005094	NP_005085	Q6P1M0	S27A4_HUMAN	solute carrier family 27 (fatty acid	28	Helical; (Potential).				long-chain fatty acid transport|transmembrane transport	integral to membrane	fatty acid transporter activity|nucleotide binding|protein binding				0						GTGGGATTCTCCCTGTTGTTC	0.587													12	16	---	---	---	---	PASS
ODF2	4957	broad.mit.edu	37	9	131221850	131221850	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:131221850C>T	uc011mbd.1	+	3	348	c.37C>T	c.(37-39)CCA>TCA	p.P13S	ODF2_uc011maz.1_Missense_Mutation_p.P13S|ODF2_uc011mba.1_5'UTR|ODF2_uc010myb.2_5'UTR|ODF2_uc011mbb.1_5'UTR|ODF2_uc011mbc.1_5'UTR|ODF2_uc004bva.2_5'UTR|ODF2_uc004bvb.2_5'UTR|ODF2_uc011mbe.1_5'UTR|ODF2_uc004bvc.2_5'UTR|ODF2_uc010myc.2_Missense_Mutation_p.P13S|ODF2_uc011mbf.1_Missense_Mutation_p.P13S|ODF2_uc004bvd.3_Missense_Mutation_p.P13S|ODF2_uc004bve.2_Missense_Mutation_p.P13S	NM_002540	NP_002531	Q5BJF6	ODFP2_HUMAN	outer dense fiber of sperm tails 2 isoform 1	13					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						GTGCAGGTTTCCATCGTGTGG	0.473													7	13	---	---	---	---	PASS
PTGES	9536	broad.mit.edu	37	9	132510953	132510953	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:132510953C>G	uc004byi.2	-	2	243	c.190G>C	c.(190-192)GAC>CAC	p.D64H	PTGES_uc010myy.2_RNA|PTGES_uc004byj.2_Missense_Mutation_p.D64H	NM_004878	NP_004869	O14684	PTGES_HUMAN	prostaglandin E synthase	64	Helical.				prostaglandin biosynthetic process|signal transduction	integral to membrane|membrane fraction	glutathione binding|prostaglandin-E synthase activity			skin(1)	1		Ovarian(14;0.00556)				CGTTCCACGTCGGGGTCGCTC	0.607													4	4	---	---	---	---	PASS
GPR107	57720	broad.mit.edu	37	9	132839568	132839568	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:132839568C>T	uc004bze.2	+						GPR107_uc004bzb.2_Intron|GPR107_uc004bzc.3_Intron|GPR107_uc011mbx.1_Intron|GPR107_uc004bzd.2_Intron	NM_001136557	NP_001130029	Q5VW38	GP107_HUMAN	G protein-coupled receptor 107 isoform 1							integral to membrane				upper_aerodigestive_tract(1)	1		Ovarian(14;0.000531)				ATTGGCTCTTCCTTTCTCAGG	0.358													9	12	---	---	---	---	PASS
PPAPDC3	84814	broad.mit.edu	37	9	134165636	134165636	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:134165636C>T	uc004cal.2	+	1	556	c.252C>T	c.(250-252)TCC>TCT	p.S84S		NM_032728	NP_116117	Q8NBV4	PPAC3_HUMAN	phosphatidic acid phosphatase type 2 domain	84	interaction with MTOR (By similarity).|Cytoplasmic (Potential).					endoplasmic reticulum membrane|integral to membrane|nuclear envelope	hydrolase activity			breast(1)	1	all_hematologic(7;0.0119)			OV - Ovarian serous cystadenocarcinoma(145;1.22e-05)|Epithelial(140;0.000173)		CCTTCAACTCCCTGCTGGCCA	0.652													22	16	---	---	---	---	PASS
PPAPDC3	84814	broad.mit.edu	37	9	134183309	134183309	+	Splice_Site	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:134183309G>A	uc004cal.2	+	2	756	c.452_splice	c.e2-1	p.A151_splice		NM_032728	NP_116117	Q8NBV4	PPAC3_HUMAN	phosphatidic acid phosphatase type 2 domain							endoplasmic reticulum membrane|integral to membrane|nuclear envelope	hydrolase activity			breast(1)	1	all_hematologic(7;0.0119)			OV - Ovarian serous cystadenocarcinoma(145;1.22e-05)|Epithelial(140;0.000173)		CCCCCCAACAGCCCTGCTCCT	0.537													8	3	---	---	---	---	PASS
RAPGEF1	2889	broad.mit.edu	37	9	134501722	134501722	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:134501722G>T	uc004cbc.2	-	10	1368	c.1238C>A	c.(1237-1239)CCG>CAG	p.P413Q	RAPGEF1_uc004cbb.2_Missense_Mutation_p.P431Q|RAPGEF1_uc010mzm.2_RNA|RAPGEF1_uc010mzn.2_Missense_Mutation_p.P418Q|RAPGEF1_uc004cbd.2_Missense_Mutation_p.P418Q	NM_005312	NP_005303	Q13905	RPGF1_HUMAN	guanine nucleotide-releasing factor 2 isoform a	413					activation of MAPKK activity|nerve growth factor receptor signaling pathway|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|endosome	guanyl-nucleotide exchange factor activity|SH3 domain binding			lung(3)|ovary(2)|breast(1)|skin(1)	7		Myeloproliferative disorder(178;0.204)		OV - Ovarian serous cystadenocarcinoma(145;2.19e-05)|Epithelial(140;0.000364)		CTCTGGCAACGGGCTAAGGTT	0.577													4	38	---	---	---	---	PASS
CEL	1056	broad.mit.edu	37	9	135942042	135942042	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:135942042C>T	uc010naa.1	+	5	689	c.673C>T	c.(673-675)CTG>TTG	p.L225L		NM_001807	NP_001798	P19835	CEL_HUMAN	carboxyl ester lipase precursor	222					cholesterol catabolic process|fatty acid catabolic process|intestinal cholesterol absorption|intestinal lipid catabolic process|pancreatic juice secretion|protein esterification	cytosol|extracellular space	acylglycerol lipase activity|carboxylesterase activity|heparin binding|sterol esterase activity|triglyceride lipase activity			pancreas(1)	1				OV - Ovarian serous cystadenocarcinoma(145;1.03e-40)|Epithelial(140;3.58e-37)|GBM - Glioblastoma multiforme(294;0.00164)|READ - Rectum adenocarcinoma(205;0.196)		CAGCGTCTCTCTGCAGGTCTC	0.642													23	22	---	---	---	---	PASS
C9orf96	169436	broad.mit.edu	37	9	136270378	136270378	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:136270378G>A	uc004cdk.2	+	18	1937	c.1876G>A	c.(1876-1878)GAG>AAG	p.E626K	C9orf96_uc004cdl.2_RNA	NM_153710	NP_714921	Q8NE28	SGK71_HUMAN	hypothetical protein LOC169436	626							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)		ACCTGCAGAGGAGATCCTGCC	0.612													7	5	---	---	---	---	PASS
REXO4	57109	broad.mit.edu	37	9	136273016	136273016	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:136273016G>A	uc004cdm.2	-						REXO4_uc011mde.1_Intron|REXO4_uc011mdf.1_Intron|REXO4_uc004cdn.2_Intron|REXO4_uc004cdo.2_Intron	NM_020385	NP_065118	Q9GZR2	REXO4_HUMAN	XPMC2 prevents mitotic catastrophe 2 homolog							nucleolus	exonuclease activity|nucleic acid binding|sequence-specific DNA binding transcription factor activity				0				OV - Ovarian serous cystadenocarcinoma(145;8.58e-08)|Epithelial(140;9.55e-07)|all cancers(34;1.05e-05)		CTGCAAAGGGGGAAGAGGCGG	0.602													6	9	---	---	---	---	PASS
SARDH	1757	broad.mit.edu	37	9	136561474	136561474	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:136561474C>T	uc004cep.3	-	14	1812	c.1678G>A	c.(1678-1680)GAG>AAG	p.E560K	SARDH_uc004ceo.2_Missense_Mutation_p.E560K|SARDH_uc011mdn.1_Missense_Mutation_p.E560K|SARDH_uc011mdo.1_Missense_Mutation_p.E392K|SARDH_uc004cen.2_5'UTR	NM_001134707	NP_001128179	Q9UL12	SARDH_HUMAN	sarcosine dehydrogenase precursor	560					glycine catabolic process	mitochondrial matrix	aminomethyltransferase activity|sarcosine dehydrogenase activity				0				OV - Ovarian serous cystadenocarcinoma(145;3.21e-07)|Epithelial(140;2.37e-06)|all cancers(34;2.75e-05)		GCCAGGCACTCCTTCTTGATC	0.587													15	13	---	---	---	---	PASS
LHX3	8022	broad.mit.edu	37	9	139089197	139089197	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:139089197C>T	uc004cha.2	-	6	1265	c.1168G>A	c.(1168-1170)GAT>AAT	p.D390N	LHX3_uc004cgz.2_Missense_Mutation_p.D395N	NM_178138	NP_835258	Q9UBR4	LHX3_HUMAN	LIM homeobox protein 3 isoform a	390					inner ear development|organ morphogenesis|positive regulation of transcription, DNA-dependent	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(1)	1		Myeloproliferative disorder(178;0.0511)		Epithelial(140;8.43e-08)|OV - Ovarian serous cystadenocarcinoma(145;1.26e-07)		TCTACCTCATCCAGCCAGGAG	0.687													3	4	---	---	---	---	PASS
SEC16A	9919	broad.mit.edu	37	9	139360519	139360519	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:139360519G>A	uc004chx.2	-	8	4507	c.4198C>T	c.(4198-4200)CAC>TAC	p.H1400Y	SEC16A_uc004chv.3_Missense_Mutation_p.H790Y|SEC16A_uc004chw.2_Missense_Mutation_p.H1400Y|SEC16A_uc010nbn.2_Missense_Mutation_p.H1400Y	NM_014866	NP_055681	O15027	SC16A_HUMAN	SEC16 homolog A	1222	Required for endoplasmic reticulum localization.				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)		AAATCGCCGTGAAAGGAGCCT	0.562													13	10	---	---	---	---	PASS
NDOR1	27158	broad.mit.edu	37	9	140109611	140109611	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:140109611C>T	uc004clw.2	+	9	1241	c.1130C>T	c.(1129-1131)CCC>CTC	p.P377L	NDOR1_uc004clx.2_Missense_Mutation_p.P377L|NDOR1_uc011mes.1_Missense_Mutation_p.P377L|NDOR1_uc004cly.2_Missense_Mutation_p.P343L	NM_014434	NP_055249	Q9UHB4	NDOR1_HUMAN	NADPH dependent diflavin oxidoreductase 1	377	FAD-binding FR-type.				cell death	cytosol|intermediate filament cytoskeleton|nucleus|perinuclear region of cytoplasm	flavin adenine dinucleotide binding|FMN binding|iron ion binding|NADP binding|oxidoreductase activity|protein binding				0	all_cancers(76;0.0926)		STAD - Stomach adenocarcinoma(284;0.0698)	OV - Ovarian serous cystadenocarcinoma(145;6.37e-05)|Epithelial(140;0.00057)		GACCTCATCCCCGTTATCCGG	0.667													4	9	---	---	---	---	PASS
SLC34A3	142680	broad.mit.edu	37	9	140126166	140126166	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:140126166C>T	uc004cmf.1	+	2	198	c.12C>T	c.(10-12)TCC>TCT	p.S4S	SLC34A3_uc004cmc.1_5'UTR|SLC34A3_uc004cmd.1_Silent_p.S4S|SLC34A3_uc011met.1_Silent_p.S4S	NM_080877	NP_543153	Q8N130	NPT2C_HUMAN	solute carrier family 34 (sodium phosphate),	4	Cytoplasmic (Potential).				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)		TGCCGAGTTCCCTTCCCGGCA	0.647													27	14	---	---	---	---	PASS
AKR1C4	1109	broad.mit.edu	37	10	5248232	5248232	+	Intron	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:5248232C>A	uc001ihw.2	+							NM_001818	NP_001809	P17516	AK1C4_HUMAN	aldo-keto reductase family 1, member C4						androgen metabolic process|bile acid biosynthetic process	cytosol	aldo-keto reductase (NADP) activity|androsterone dehydrogenase (B-specific) activity|bile acid transmembrane transporter activity|chlordecone reductase activity|electron carrier activity			ovary(1)	1					NADH(DB00157)	ACCCCTTTCTCCCCAGGTCAT	0.453													15	48	---	---	---	---	PASS
TUBAL3	79861	broad.mit.edu	37	10	5435743	5435743	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:5435743C>T	uc001ihy.2	-	4	1118	c.1078G>A	c.(1078-1080)GTG>ATG	p.V360M	TUBAL3_uc001ihz.2_Missense_Mutation_p.V320M	NM_024803	NP_079079	A6NHL2	TBAL3_HUMAN	tubulin, alpha-like 3	360					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1						TTGATGCCCACCTTGAAACCA	0.572													14	20	---	---	---	---	PASS
TUBAL3	79861	broad.mit.edu	37	10	5435744	5435744	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:5435744C>T	uc001ihy.2	-	4	1117	c.1077G>A	c.(1075-1077)AAG>AAA	p.K359K	TUBAL3_uc001ihz.2_Silent_p.K319K	NM_024803	NP_079079	A6NHL2	TBAL3_HUMAN	tubulin, alpha-like 3	359					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1						TGATGCCCACCTTGAAACCAG	0.572													14	21	---	---	---	---	PASS
TUBAL3	79861	broad.mit.edu	37	10	5435781	5435781	+	Missense_Mutation	SNP	G	A	A	rs148029829		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:5435781G>A	uc001ihy.2	-	4	1080	c.1040C>T	c.(1039-1041)TCT>TTT	p.S347F	TUBAL3_uc001ihz.2_Missense_Mutation_p.S307F	NM_024803	NP_079079	A6NHL2	TBAL3_HUMAN	tubulin, alpha-like 3	347					microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|structural molecule activity			skin(1)	1						AAACTGAACAGAGTGCCTCGA	0.577													10	36	---	---	---	---	PASS
NET1	10276	broad.mit.edu	37	10	5498921	5498921	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:5498921C>T	uc001iia.2	+	12	1893	c.1755C>T	c.(1753-1755)GCC>GCT	p.A585A	NET1_uc010qar.1_Silent_p.A404A|NET1_uc001iib.2_Silent_p.A531A|NET1_uc010qas.1_Silent_p.A404A	NM_001047160	NP_001040625	Q7Z628	ARHG8_HUMAN	neuroepithelial cell transforming gene 1 isoform	585					apoptosis|induction of apoptosis by extracellular signals|nerve growth factor receptor signaling pathway|regulation of cell growth|regulation of Rho protein signal transduction|small GTPase mediated signal transduction	cytosol|nucleus	Rho guanyl-nucleotide exchange factor activity			breast(1)	1						GGGACAAAGCCCTTTCTGGTG	0.483													8	39	---	---	---	---	PASS
IL2RA	3559	broad.mit.edu	37	10	6063598	6063598	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:6063598G>A	uc001iiz.1	-	4	585	c.426C>T	c.(424-426)TTC>TTT	p.F142F	IL2RA_uc009xih.1_Intron|IL2RA_uc001ija.1_Intron	NM_000417	NP_000408	P01589	IL2RA_HUMAN	interleukin 2 receptor, alpha chain precursor	142	Sushi 2.|Extracellular (Potential).				cell proliferation	integral to membrane	interleukin-2 receptor activity			ovary(1)|skin(1)	2					Aldesleukin(DB00041)|Basiliximab(DB00074)|Daclizumab(DB00111)|Denileukin diftitox(DB00004)	GCCCCACCACGAAATGATAAA	0.512													16	41	---	---	---	---	PASS
SFMBT2	57713	broad.mit.edu	37	10	7218107	7218107	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:7218107C>T	uc009xio.1	-	17	1920	c.1829G>A	c.(1828-1830)AGG>AAG	p.R610K	SFMBT2_uc001ijn.1_Missense_Mutation_p.R610K|SFMBT2_uc010qay.1_Missense_Mutation_p.R445K	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	610					regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						GACCACAGCCCTGTATGTTTT	0.473													16	47	---	---	---	---	PASS
SFMBT2	57713	broad.mit.edu	37	10	7239571	7239571	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:7239571C>T	uc009xio.1	-	15	1728	c.1637G>A	c.(1636-1638)GGA>GAA	p.G546E	SFMBT2_uc001ijn.1_Missense_Mutation_p.G546E|SFMBT2_uc010qay.1_Intron	NM_001029880	NP_001025051	Q5VUG0	SMBT2_HUMAN	Scm-like with four mbt domains 2	546					regulation of transcription, DNA-dependent	nucleus				ovary(4)|upper_aerodigestive_tract(2)|large_intestine(1)|central_nervous_system(1)	8						TGCAATCCTTCCTTTGTTCAG	0.507													11	58	---	---	---	---	PASS
KIN	22944	broad.mit.edu	37	10	7829789	7829789	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:7829789C>T	uc001ijt.2	-	1	156	c.108G>A	c.(106-108)CGG>CGA	p.R36R	KIN_uc010qaz.1_RNA|KIN_uc009xip.2_Silent_p.R36R|KIN_uc010qba.1_5'UTR|ATP5C1_uc010qbb.1_5'Flank|ATP5C1_uc009xiq.1_5'Flank|ATP5C1_uc010qbc.1_5'Flank|ATP5C1_uc001iju.2_5'Flank|ATP5C1_uc001ijv.2_5'Flank	NM_012311	NP_036443	O60870	KIN17_HUMAN	HsKin17 protein	36	C2H2-type.				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						TCACCTCGTCCCGGCACTGCT	0.642													17	60	---	---	---	---	PASS
ATP5C1	509	broad.mit.edu	37	10	7838078	7838078	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:7838078C>T	uc001iju.2	+						ATP5C1_uc010qbb.1_Intron|ATP5C1_uc009xiq.1_Intron|ATP5C1_uc010qbc.1_Intron|ATP5C1_uc001ijv.2_Intron	NM_001001973	NP_001001973	P36542	ATPG_HUMAN	ATP synthase, H+ transporting, mitochondrial F1						oxidative phosphorylation|respiratory electron transport chain	mitochondrial matrix|mitochondrial proton-transporting ATP synthase complex, catalytic core F(1)	hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism				0						AAACTTTTATCCTCAGGATTC	0.244													6	22	---	---	---	---	PASS
DHTKD1	55526	broad.mit.edu	37	10	12162808	12162808	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:12162808C>T	uc001ild.3	+	17	2780	c.2681C>T	c.(2680-2682)CCT>CTT	p.P894L		NM_018706	NP_061176	Q96HY7	DHTK1_HUMAN	dehydrogenase E1 and transketolase domain	894					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)			GGCCGGCCCCCTTTGCCAGTA	0.478													7	26	---	---	---	---	PASS
PHYH	5264	broad.mit.edu	37	10	13323110	13323110	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:13323110C>T	uc001imf.2	-	8	917	c.829G>A	c.(829-831)GCA>ACA	p.A277T	PHYH_uc001ime.2_Missense_Mutation_p.A177T|PHYH_uc001img.2_Missense_Mutation_p.A260T	NM_006214	NP_006205	O14832	PAHX_HUMAN	phytanoyl-CoA 2-hydroxylase isoform a precursor	277					fatty acid alpha-oxidation|nervous system development	peroxisomal matrix	electron carrier activity|L-ascorbic acid binding|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|phytanoyl-CoA dioxygenase activity|protein binding				0		Ovarian(717;0.0448)			Antihemophilic Factor(DB00025)|Vitamin C(DB00126)	CAGGAAATTGCCTGTGCAAAG	0.418													8	25	---	---	---	---	PASS
PHYH	5264	broad.mit.edu	37	10	13323111	13323111	+	Splice_Site	SNP	C	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:13323111C>G	uc001imf.2	-	8	917	c.829_splice	c.e8-1	p.A277_splice	PHYH_uc001ime.2_Splice_Site_p.A177_splice|PHYH_uc001img.2_Splice_Site_p.A260_splice	NM_006214	NP_006205	O14832	PAHX_HUMAN	phytanoyl-CoA 2-hydroxylase isoform a precursor						fatty acid alpha-oxidation|nervous system development	peroxisomal matrix	electron carrier activity|L-ascorbic acid binding|metal ion binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|phytanoyl-CoA dioxygenase activity|protein binding				0		Ovarian(717;0.0448)			Antihemophilic Factor(DB00025)|Vitamin C(DB00126)	AGGAAATTGCCTGTGCAAAGT	0.418													8	24	---	---	---	---	PASS
ITGA8	8516	broad.mit.edu	37	10	15614224	15614224	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:15614224G>A	uc001ioc.1	-	25	2623	c.2623C>T	c.(2623-2625)CCA>TCA	p.P875S	ITGA8_uc010qcb.1_Missense_Mutation_p.P860S	NM_003638	NP_003629	P53708	ITA8_HUMAN	integrin, alpha 8 precursor	875	Extracellular (Potential).				cell differentiation|cell-cell adhesion|cell-matrix adhesion|integrin-mediated signaling pathway|nervous system development	integrin complex	receptor activity			ovary(3)|lung(3)	6						ATATCCTGTGGATTGATATTA	0.388													16	38	---	---	---	---	PASS
RSU1	6251	broad.mit.edu	37	10	16796894	16796894	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:16796894G>A	uc001iok.2	-	4	678	c.376C>T	c.(376-378)CTT>TTT	p.L126F	RSU1_uc001iol.2_Missense_Mutation_p.L126F|RSU1_uc001iom.2_Missense_Mutation_p.L73F|RSU1_uc001ion.2_Missense_Mutation_p.L126F	NM_152724	NP_689937	Q15404	RSU1_HUMAN	ras suppressor protein 1 isoform 2	126	LRR 4.				cell junction assembly|signal transduction	cytosol	protein binding			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(1;7.54e-08)		TTTCCAGGAAGAGAATTTTCG	0.448													21	39	---	---	---	---	PASS
CUBN	8029	broad.mit.edu	37	10	16867061	16867061	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:16867061G>A	uc001ioo.2	-	67	10837	c.10785C>T	c.(10783-10785)TTC>TTT	p.F3595F		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	3595	CUB 27.				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)	AGGAAGCCACGAAGGGAGCTA	0.378													6	18	---	---	---	---	PASS
CUBN	8029	broad.mit.edu	37	10	16955826	16955826	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:16955826T>A	uc001ioo.2	-	48	7569	c.7517A>T	c.(7516-7518)AAC>ATC	p.N2506I		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	2506	CUB 18.				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)	ATGCTCATTGTTGCAGGACGG	0.493													15	76	---	---	---	---	PASS
CUBN	8029	broad.mit.edu	37	10	16957035	16957035	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:16957035C>T	uc001ioo.2	-	47	7399	c.7347G>A	c.(7345-7347)ATG>ATA	p.M2449I		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	2449					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)	ACTCACCTTCCATACTGGATT	0.274													6	15	---	---	---	---	PASS
CUBN	8029	broad.mit.edu	37	10	16967273	16967273	+	Missense_Mutation	SNP	C	T	T	rs140883483		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:16967273C>T	uc001ioo.2	-	43	6665	c.6613G>A	c.(6613-6615)GGA>AGA	p.G2205R		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	2205	CUB 15.				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)	ATTTTAAATCCTTGCCCTTCA	0.328													10	30	---	---	---	---	PASS
CUBN	8029	broad.mit.edu	37	10	16967623	16967623	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:16967623G>A	uc001ioo.2	-	42	6474	c.6422C>T	c.(6421-6423)CCA>CTA	p.P2141L		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	2141	CUB 15.				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)	ATCTCCATTTGGAATCTGGAA	0.443													24	33	---	---	---	---	PASS
CUBN	8029	broad.mit.edu	37	10	17032459	17032459	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:17032459G>A	uc001ioo.2	-	29	4276	c.4224C>T	c.(4222-4224)CCC>CCT	p.P1408P		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1408	CUB 9.				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)	GATACCTGTTGGGGAACCCGG	0.522													9	27	---	---	---	---	PASS
CUBN	8029	broad.mit.edu	37	10	17087150	17087150	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:17087150G>A	uc001ioo.2	-	25	3580	c.3528C>T	c.(3526-3528)TTC>TTT	p.F1176F		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1176	CUB 7.				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)	TGGGAGATATGAACGTGCCGC	0.478													23	42	---	---	---	---	PASS
CUBN	8029	broad.mit.edu	37	10	17088080	17088080	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:17088080C>T	uc001ioo.2	-	24	3395	c.3343G>A	c.(3343-3345)GAA>AAA	p.E1115K		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	1115	CUB 6.				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)	GGTGATTTTTCATAGCCTCCA	0.323													7	16	---	---	---	---	PASS
CUBN	8029	broad.mit.edu	37	10	17113553	17113553	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:17113553G>A	uc001ioo.2	-	19	2549	c.2497C>T	c.(2497-2499)CCT>TCT	p.P833S		NM_001081	NP_001072	O60494	CUBN_HUMAN	cubilin precursor	833	CUB 4.				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)	TACACGTTAGGAAAAAAAGGC	0.418													24	32	---	---	---	---	PASS
CUBN	8029	broad.mit.edu	37	10	17153054	17153054	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:17153054G>A	uc001ioo.2	-							NM_001081	NP_001072	O60494	CUBN_HUMAN	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)	GCCAGCCTAGGAAAACAAGAG	0.269													10	57	---	---	---	---	PASS
VIM	7431	broad.mit.edu	37	10	17275769	17275769	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:17275769G>A	uc001iou.2	+	5	1134	c.721G>A	c.(721-723)GAA>AAA	p.E241K	VIM_uc001iov.1_Missense_Mutation_p.E241K|VIM_uc001iow.1_RNA|VIM_uc001iox.1_Missense_Mutation_p.E241K|VIM_uc001ioy.1_Missense_Mutation_p.E241K|VIM_uc001ioz.1_RNA|VIM_uc001ipb.1_RNA|VIM_uc009xjv.1_Missense_Mutation_p.E241K|VIM_uc001ipc.1_Missense_Mutation_p.E241K	NM_003380	NP_003371	P08670	VIME_HUMAN	vimentin	241	Rod.|Coil 1B.				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						CTTTTTGCAGGAAATCCAGGA	0.542													9	33	---	---	---	---	PASS
ST8SIA6	338596	broad.mit.edu	37	10	17363050	17363050	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:17363050C>T	uc001ipd.2	-	8	1024	c.1024G>A	c.(1024-1026)GGA>AGA	p.G342R	ST8SIA6_uc010qce.1_RNA	NM_001004470	NP_001004470	P61647	SIA8F_HUMAN	ST8 alpha-N-acetyl-neuraminide	342	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(1)	1						GGCCAGAATCCATACAGCTTC	0.438													24	81	---	---	---	---	PASS
ST8SIA6	338596	broad.mit.edu	37	10	17363177	17363177	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:17363177G>A	uc001ipd.2	-	8	897	c.897C>T	c.(895-897)TTC>TTT	p.F299F	ST8SIA6_uc010qce.1_RNA	NM_001004470	NP_001004470	P61647	SIA8F_HUMAN	ST8 alpha-N-acetyl-neuraminide	299	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to Golgi membrane	alpha-N-acetylneuraminate alpha-2,8-sialyltransferase activity			ovary(1)	1						ACTTGGGATGGAAAAATAGAA	0.463													40	132	---	---	---	---	PASS
PTPLA	9200	broad.mit.edu	37	10	17641303	17641303	+	Silent	SNP	G	A	A	rs138699109		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:17641303G>A	uc001ipg.2	-	5	626	c.591C>T	c.(589-591)TTC>TTT	p.F197F		NM_014241	NP_055056	B0YJ81	HACD1_HUMAN	protein tyrosine phosphatase-like, member A	197	Cytoplasmic (Potential).				fatty acid biosynthetic process|multicellular organismal development|signal transduction	endoplasmic reticulum membrane|integral to membrane	lyase activity|protein tyrosine phosphatase activity			central_nervous_system(1)|skin(1)	2						CCCATTTAATGAAGTATGGCA	0.443													21	22	---	---	---	---	PASS
MRC1	4360	broad.mit.edu	37	10	17949609	17949609	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:17949609C>T	uc001ipk.2	+	28	4076	c.3973C>T	c.(3973-3975)CCC>TCC	p.P1325S		NM_002438	NP_002429	P22897	MRC1_HUMAN	mannose receptor C type 1 precursor	1325	Extracellular (Potential).|C-type lectin 8.				receptor-mediated endocytosis	endosome membrane|integral to plasma membrane	mannose binding|receptor activity				0						CACAGGAGATCCCTCTGGTGA	0.398													17	29	---	---	---	---	PASS
NSUN6	221078	broad.mit.edu	37	10	18834989	18834989	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:18834989G>A	uc010qcp.1	-	11	1701	c.1283C>T	c.(1282-1284)GCT>GTT	p.A428V	NSUN6_uc001iqb.2_5'Flank	NM_182543	NP_872349	Q8TEA1	NSUN6_HUMAN	NOL1/NOP2/Sun domain family, member 6	428							methyltransferase activity|RNA binding			ovary(2)	2						TAATGGCACAGCCGATGGATC	0.478													51	95	---	---	---	---	PASS
NEBL	10529	broad.mit.edu	37	10	21177141	21177141	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:21177141G>A	uc001iqi.2	-						NEBL_uc001iqj.2_Intron|NEBL_uc001iqk.2_Intron	NM_006393	NP_006384	O76041	NEBL_HUMAN	nebulette sarcomeric isoform						regulation of actin filament length		actin binding|structural constituent of muscle			ovary(2)	2						TTTTGCCTGGGGGAAAAAAAA	0.323													10	16	---	---	---	---	PASS
THNSL1	79896	broad.mit.edu	37	10	25312772	25312772	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:25312772C>T	uc001isi.3	+	3	949	c.620C>T	c.(619-621)GCT>GTT	p.A207V	ENKUR_uc001ish.1_Intron	NM_024838	NP_079114	Q8IYQ7	THNS1_HUMAN	threonine synthase-like 1	207					threonine biosynthetic process		ATP binding|pyridoxal phosphate binding|shikimate kinase activity|threonine synthase activity			pancreas(1)	1					L-Threonine(DB00156)|Pyridoxal Phosphate(DB00114)	GAAAGTGGGGCTTCCCCAGAG	0.398													12	56	---	---	---	---	PASS
GPR158	57512	broad.mit.edu	37	10	25887663	25887663	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:25887663G>A	uc001isj.2	+	11	3168	c.3108G>A	c.(3106-3108)ATG>ATA	p.M1036I	GPR158_uc001isk.2_Missense_Mutation_p.M411I	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	1036	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						CTTCTGAAATGGAGAAAAACC	0.463													10	46	---	---	---	---	PASS
GPR158	57512	broad.mit.edu	37	10	25887664	25887664	+	Missense_Mutation	SNP	G	A	A	rs12412738		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:25887664G>A	uc001isj.2	+	11	3169	c.3109G>A	c.(3109-3111)GAG>AAG	p.E1037K	GPR158_uc001isk.2_Missense_Mutation_p.E412K	NM_020752	NP_065803	Q5T848	GP158_HUMAN	G protein-coupled receptor 158 precursor	1037	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(4)|large_intestine(2)|pancreas(1)|skin(1)	8						TTCTGAAATGGAGAAAAACCC	0.463													11	48	---	---	---	---	PASS
MYO3A	53904	broad.mit.edu	37	10	26414347	26414347	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:26414347C>T	uc001isn.2	+	19	2284	c.1924C>T	c.(1924-1926)CGG>TGG	p.R642W	MYO3A_uc009xko.1_Missense_Mutation_p.R642W|MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Intron	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	642	Myosin head-like.				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						GCTTTGCATTCGGGCAGATGA	0.418													19	27	---	---	---	---	PASS
MYO3A	53904	broad.mit.edu	37	10	26414396	26414396	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:26414396G>A	uc001isn.2	+	19	2333	c.1973G>A	c.(1972-1974)AGA>AAA	p.R658K	MYO3A_uc009xko.1_Missense_Mutation_p.R658K|MYO3A_uc009xkp.1_RNA|MYO3A_uc009xkq.1_Intron	NM_017433	NP_059129	Q8NEV4	MYO3A_HUMAN	myosin IIIA	658	Myosin head-like.				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	p.R658G(1)		ovary(6)|stomach(3)|lung(3)|central_nervous_system(2)|breast(1)|skin(1)|kidney(1)|pancreas(1)	18						GTGGTCACTAGAGGAGAAACA	0.428													27	44	---	---	---	---	PASS
APBB1IP	54518	broad.mit.edu	37	10	26781271	26781271	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:26781271G>A	uc001iss.2	+	3	337	c.16G>A	c.(16-18)GAA>AAA	p.E6K	APBB1IP_uc001isr.2_Missense_Mutation_p.E6K|APBB1IP_uc009xks.1_Missense_Mutation_p.E6K	NM_019043	NP_061916	Q7Z5R6	AB1IP_HUMAN	amyloid beta (A4) precursor protein-binding,	6					blood coagulation|signal transduction	cytoskeleton|cytosol|focal adhesion|lamellipodium				lung(4)|skin(2)|central_nervous_system(1)	7						TGAGTCAAGTGAAGACATAGA	0.408													19	27	---	---	---	---	PASS
APBB1IP	54518	broad.mit.edu	37	10	26800681	26800681	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:26800681C>T	uc001iss.2	+	7	858	c.537C>T	c.(535-537)GTC>GTT	p.V179V	APBB1IP_uc009xks.1_Silent_p.V179V	NM_019043	NP_061916	Q7Z5R6	AB1IP_HUMAN	amyloid beta (A4) precursor protein-binding,	179	Ras-associating.				blood coagulation|signal transduction	cytoskeleton|cytosol|focal adhesion|lamellipodium				lung(4)|skin(2)|central_nervous_system(1)	7						CTCAGCTCGTCGTCAAGGTGC	0.458													16	35	---	---	---	---	PASS
WAC	51322	broad.mit.edu	37	10	28878666	28878666	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:28878666C>T	uc001iuf.2	+	5	468	c.383C>T	c.(382-384)CCT>CTT	p.P128L	WAC_uc001iud.2_Missense_Mutation_p.P83L|WAC_uc001iue.2_Intron|WAC_uc009xlb.2_Missense_Mutation_p.P83L|WAC_uc001iug.2_Missense_Mutation_p.P128L|WAC_uc001iuh.2_Missense_Mutation_p.P83L	NM_016628	NP_057712	Q9BTA9	WAC_HUMAN	WW domain-containing adapter with a coiled-coil	128					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						ATTTTTAAGCCTTATGATTCT	0.308													13	40	---	---	---	---	PASS
WAC	51322	broad.mit.edu	37	10	28905255	28905255	+	Silent	SNP	C	T	T	rs141367539		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:28905255C>T	uc001iuf.2	+	12	1795	c.1710C>T	c.(1708-1710)CAC>CAT	p.H570H	WAC_uc001iud.2_Silent_p.H525H|WAC_uc001iue.2_Silent_p.H260H|WAC_uc001iug.2_Silent_p.H467H|WAC_uc001iuh.2_Silent_p.H521H	NM_016628	NP_057712	Q9BTA9	WAC_HUMAN	WW domain-containing adapter with a coiled-coil	570					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						TCATAAAACACGTTCAAGGAT	0.413													9	34	---	---	---	---	PASS
SVIL	6840	broad.mit.edu	37	10	29779793	29779793	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:29779793C>A	uc001iut.1	-	22	4928	c.4175G>T	c.(4174-4176)CGG>CTG	p.R1392L	SVIL_uc010qdw.1_Missense_Mutation_p.R306L|SVIL_uc001iuu.1_Missense_Mutation_p.R966L|SVIL_uc009xlc.2_Missense_Mutation_p.R184L	NM_021738	NP_068506	O95425	SVIL_HUMAN	supervillin isoform 2	1392					cytoskeleton organization|skeletal muscle tissue development	cell junction|costamere|invadopodium|nucleus|podosome	actin filament binding			ovary(5)|upper_aerodigestive_tract(1)	6		Breast(68;0.103)				TACTTTCATCCGCTTTGACTC	0.473													5	42	---	---	---	---	PASS
KIAA1462	57608	broad.mit.edu	37	10	30315231	30315231	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:30315231C>T	uc001iux.2	-	2	3905	c.3846G>A	c.(3844-3846)CAG>CAA	p.Q1282Q	KIAA1462_uc001iuy.2_Intron|KIAA1462_uc001iuz.2_Silent_p.Q1144Q|KIAA1462_uc009xle.1_Silent_p.Q1282Q	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	1282										ovary(4)	4						CGGCGTCCTCCTGGGAGTCGG	0.637													12	19	---	---	---	---	PASS
KIAA1462	57608	broad.mit.edu	37	10	30317559	30317559	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:30317559C>T	uc001iux.2	-	2	1577	c.1518G>A	c.(1516-1518)GGG>GGA	p.G506G	KIAA1462_uc001iuy.2_Intron|KIAA1462_uc001iuz.2_Silent_p.G368G|KIAA1462_uc009xle.1_Silent_p.G506G	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	506										ovary(4)	4						TTTCCCCATCCCCGGGGGGCT	0.642													21	38	---	---	---	---	PASS
KIAA1462	57608	broad.mit.edu	37	10	30317560	30317560	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:30317560C>T	uc001iux.2	-	2	1576	c.1517G>A	c.(1516-1518)GGG>GAG	p.G506E	KIAA1462_uc001iuy.2_Intron|KIAA1462_uc001iuz.2_Missense_Mutation_p.G368E|KIAA1462_uc009xle.1_Missense_Mutation_p.G506E	NM_020848	NP_065899	Q9P266	K1462_HUMAN	hypothetical protein LOC57608	506										ovary(4)	4						TTCCCCATCCCCGGGGGGCTG	0.642													21	38	---	---	---	---	PASS
ZNF438	220929	broad.mit.edu	37	10	31137767	31137767	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:31137767G>A	uc010qdz.1	-	7	2002	c.1567C>T	c.(1567-1569)CGA>TGA	p.R523*	ZNF438_uc001ivn.2_Nonsense_Mutation_p.R474*|ZNF438_uc010qdy.1_Nonsense_Mutation_p.R513*|ZNF438_uc001ivo.3_Nonsense_Mutation_p.R87*|ZNF438_uc009xlg.2_Nonsense_Mutation_p.R523*|ZNF438_uc001ivp.3_Nonsense_Mutation_p.R513*|ZNF438_uc010qea.1_Nonsense_Mutation_p.R523*|ZNF438_uc010qeb.1_Nonsense_Mutation_p.R523*|ZNF438_uc010qec.1_Nonsense_Mutation_p.R87*	NM_182755	NP_877432	Q7Z4V0	ZN438_HUMAN	zinc finger protein 438 isoform a	523	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)	2		Prostate(175;0.0587)				ATGTGGTCTCGAAGGTGCTGT	0.498													63	81	---	---	---	---	PASS
ARHGAP12	94134	broad.mit.edu	37	10	32103268	32103268	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:32103268T>C	uc001ivz.1	-	14	2023	c.1753A>G	c.(1753-1755)ATT>GTT	p.I585V	ARHGAP12_uc001ivy.1_Missense_Mutation_p.I531V|ARHGAP12_uc009xls.2_Missense_Mutation_p.I536V|ARHGAP12_uc001iwb.1_Missense_Mutation_p.I578V|ARHGAP12_uc001iwc.1_Missense_Mutation_p.I553V|ARHGAP12_uc009xlq.1_Missense_Mutation_p.I506V|ARHGAP12_uc001iwd.1_Missense_Mutation_p.I553V|ARHGAP12_uc009xlr.1_Missense_Mutation_p.I583V	NM_018287	NP_060757	Q8IWW6	RHG12_HUMAN	Rho GTPase activating protein 12	585					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity				0		Prostate(175;0.0199)				TCCTCTTCAATTCCTTCATCA	0.363													48	60	---	---	---	---	PASS
CCDC7	221016	broad.mit.edu	37	10	32856633	32856633	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:32856633C>T	uc001iwj.2	+	16	1803	c.1233C>T	c.(1231-1233)TTC>TTT	p.F411F	CCDC7_uc001iwk.2_Silent_p.F411F|CCDC7_uc009xlv.2_RNA|C10orf68_uc001iwl.1_5'UTR|C10orf68_uc001iwm.1_5'UTR|C10orf68_uc001iwn.3_5'Flank	NM_145023	NP_659460	Q96M83	CCDC7_HUMAN	coiled-coil domain containing 7	411	Potential.										0		Breast(68;0.000207)|Prostate(175;0.0107)				TTAACTATTTCCTAAATCAAG	0.313													5	26	---	---	---	---	PASS
NRP1	8829	broad.mit.edu	37	10	33559651	33559651	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:33559651C>T	uc001iwx.3	-	3	905	c.382G>A	c.(382-384)GAA>AAA	p.E128K	NRP1_uc001iwv.3_Missense_Mutation_p.E128K|NRP1_uc009xlz.2_Missense_Mutation_p.E128K|NRP1_uc001iww.3_Intron|NRP1_uc001iwy.3_Missense_Mutation_p.E128K|NRP1_uc001iwz.2_Missense_Mutation_p.E128K|NRP1_uc001ixa.2_Missense_Mutation_p.E128K|NRP1_uc001ixb.1_Missense_Mutation_p.E128K|NRP1_uc001ixc.1_Missense_Mutation_p.E128K	NM_003873	NP_003864	O14786	NRP1_HUMAN	neuropilin 1 isoform a	128	CUB 1.|Extracellular (Potential).				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)	CCATGTGTTTCGTAGTCAGAG	0.383													15	34	---	---	---	---	PASS
PARD3	56288	broad.mit.edu	37	10	34759113	34759113	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:34759113G>A	uc010qej.1	-	4	482	c.482C>T	c.(481-483)TCC>TTC	p.S161F	PARD3_uc010qek.1_Missense_Mutation_p.S161F|PARD3_uc010qel.1_Missense_Mutation_p.S161F|PARD3_uc010qem.1_Missense_Mutation_p.S161F|PARD3_uc010qen.1_Missense_Mutation_p.S161F|PARD3_uc010qeo.1_Missense_Mutation_p.S161F|PARD3_uc010qep.1_Missense_Mutation_p.S161F|PARD3_uc010qeq.1_Missense_Mutation_p.S161F|PARD3_uc001ixp.1_Missense_Mutation_p.S26F|PARD3_uc001ixq.1_Missense_Mutation_p.S161F|PARD3_uc001ixr.1_Missense_Mutation_p.S161F|PARD3_uc001ixt.1_Missense_Mutation_p.S26F|PARD3_uc001ixu.1_Missense_Mutation_p.S161F	NM_019619	NP_062565	Q8TEW0	PARD3_HUMAN	partitioning-defective protein 3 homolog	161					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)				CTCTTCAGAGGAAAAATTACT	0.473													36	77	---	---	---	---	PASS
CREM	1390	broad.mit.edu	37	10	35468222	35468222	+	Intron	SNP	C	T	T	rs147897653	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:35468222C>T	uc001iyb.2	+						CREM_uc001ixx.2_Nonsense_Mutation_p.R127*|CREM_uc001ixy.2_Intron|CREM_uc001ixz.2_Intron|CREM_uc001iya.2_Intron|CREM_uc001iyc.2_Intron|CREM_uc001iyd.2_Intron|CREM_uc001iye.2_Intron|CREM_uc001iyf.2_Intron|CREM_uc001iyg.2_Intron|CREM_uc001iyh.2_Intron|CREM_uc001iyi.2_Intron|CREM_uc001iyj.2_Intron|CREM_uc001iyk.2_Intron	NM_181571	NP_853549	Q03060	CREM_HUMAN	cAMP responsive element modulator isoform a						cell differentiation|multicellular organismal development|signal transduction|spermatogenesis	nucleus	cAMP response element binding protein binding|protein binding|protein dimerization activity|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0						TGCTGCAATTCGATATGATAC	0.378													18	55	---	---	---	---	PASS
FZD8	8325	broad.mit.edu	37	10	35930016	35930016	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:35930016G>A	uc001iyz.1	-	1	347	c.342C>T	c.(340-342)GCC>GCT	p.A114A		NM_031866	NP_114072	Q9H461	FZD8_HUMAN	frizzled 8 precursor	114	FZ.|Extracellular (Potential).				axonogenesis|brain development|canonical Wnt receptor signaling pathway|embryo development|gonad development|T cell differentiation in thymus|vasculature development	cell projection|Golgi apparatus|integral to membrane|plasma membrane	G-protein coupled receptor activity|PDZ domain binding|Wnt receptor activity|Wnt-protein binding				0						AGCCGGCCTTGGCGCGCTCGC	0.682													3	3	---	---	---	---	PASS
ANKRD30A	91074	broad.mit.edu	37	10	37418828	37418828	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:37418828C>T	uc001iza.1	+	2	160	c.61C>T	c.(61-63)CTA>TTA	p.L21L		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	77	ANK 1.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						TAGGACTGCTCTACACTGGGC	0.453													7	25	---	---	---	---	PASS
ANKRD30A	91074	broad.mit.edu	37	10	37436363	37436363	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:37436363G>A	uc001iza.1	+	9	1452	c.1353G>A	c.(1351-1353)ATG>ATA	p.M451I		NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A	507						nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						AAAAAGTAATGGAGATAAATA	0.289													8	14	---	---	---	---	PASS
ZNF33B	7582	broad.mit.edu	37	10	43088170	43088170	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:43088170T>A	uc001jaf.1	-	5	2343	c.2228A>T	c.(2227-2229)CAT>CTT	p.H743L	ZNF33B_uc009xmg.1_Intron|ZNF33B_uc001jae.1_Intron|ZNF33B_uc001jag.1_Missense_Mutation_p.H631L|ZNF33B_uc001jad.2_Intron	NM_006955	NP_008886	Q06732	ZN33B_HUMAN	zinc finger protein 33B	743	C2H2-type 15.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						TTCCCCTGTATGTGATCTCTG	0.393													43	55	---	---	---	---	PASS
HNRNPF	3185	broad.mit.edu	37	10	43882454	43882454	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:43882454C>T	uc009xmh.1	-	3	1366	c.879G>A	c.(877-879)ATG>ATA	p.M293I	HNRNPF_uc001jar.2_Missense_Mutation_p.M293I|HNRNPF_uc001jas.2_Missense_Mutation_p.M293I|HNRNPF_uc001jat.2_Missense_Mutation_p.M293I|HNRNPF_uc001jav.2_Missense_Mutation_p.M293I|HNRNPF_uc001jau.2_Missense_Mutation_p.M293I|uc010qfa.1_Missense_Mutation_p.H46Y	NM_001098208	NP_001091678	P52597	HNRPF_HUMAN	heterogeneous nuclear ribonucleoprotein F	293	RRM 3.				regulation of RNA splicing	catalytic step 2 spliceosome|cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|single-stranded RNA binding				0						GCAGGCCCCTCATGTGGACAC	0.532													7	18	---	---	---	---	PASS
MARCH8	220972	broad.mit.edu	37	10	45959739	45959739	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:45959739C>T	uc001jci.1	-	4	429	c.190G>A	c.(190-192)GTG>ATG	p.V64M	MARCH8_uc001jch.2_Missense_Mutation_p.V64M|MARCH8_uc001jcj.1_Missense_Mutation_p.V64M|MARCH8_uc001jck.1_Missense_Mutation_p.V64M|MARCH8_uc001jcg.1_5'Flank	NM_001002266	NP_001002266	Q5T0T0	MARH8_HUMAN	cellular modulator of immune recognition isoform	64						cytoplasmic vesicle membrane|early endosome membrane|integral to membrane|lysosomal membrane	ubiquitin-protein ligase activity|zinc ion binding				0						AAGGAGGACACCGGAGCCGGA	0.557													18	50	---	---	---	---	PASS
PPYR1	5540	broad.mit.edu	37	10	47086879	47086879	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:47086879A>T	uc001jee.2	+	3	515	c.96A>T	c.(94-96)GAA>GAT	p.E32D	ANXA8_uc001jed.3_Intron|PPYR1_uc009xna.2_Missense_Mutation_p.E32D	NM_005972	NP_005963	P50391	NPY4R_HUMAN	pancreatic polypeptide receptor 1	32	Extracellular (Potential).				blood circulation|digestion|feeding behavior	integral to plasma membrane				ovary(1)|skin(1)	2						ACTTCTCTGAACATTGCCAGG	0.527													10	111	---	---	---	---	PASS
PPYR1	5540	broad.mit.edu	37	10	47087301	47087301	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:47087301C>T	uc001jee.2	+	3	937	c.518C>T	c.(517-519)CCC>CTC	p.P173L	ANXA8_uc001jed.3_Intron|PPYR1_uc009xna.2_Missense_Mutation_p.P173L	NM_005972	NP_005963	P50391	NPY4R_HUMAN	pancreatic polypeptide receptor 1	173	Helical; Name=4; (Potential).				blood circulation|digestion|feeding behavior	integral to plasma membrane				ovary(1)|skin(1)	2						CTCTCCCTGCCCTTCCTGGCC	0.567													14	111	---	---	---	---	PASS
PPYR1	5540	broad.mit.edu	37	10	47087788	47087788	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:47087788C>T	uc001jee.2	+	3	1424	c.1005C>T	c.(1003-1005)GCC>GCT	p.A335A	ANXA8_uc001jed.3_Intron|PPYR1_uc009xna.2_Silent_p.A335A	NM_005972	NP_005963	P50391	NPY4R_HUMAN	pancreatic polypeptide receptor 1	335	Cytoplasmic (Potential).				blood circulation|digestion|feeding behavior	integral to plasma membrane				ovary(1)|skin(1)	2						AGATCAAGGCCCTGGTGCTGA	0.552													14	92	---	---	---	---	PASS
ZNF488	118738	broad.mit.edu	37	10	48371416	48371416	+	Missense_Mutation	SNP	G	A	A	rs77048726		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:48371416G>A	uc001jex.2	+	2	1046	c.884G>A	c.(883-885)CGA>CAA	p.R295Q	ZNF488_uc001jey.2_Missense_Mutation_p.R188Q	NM_153034	NP_694579	Q96MN9	ZN488_HUMAN	zinc finger protein 488	295	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TTTCACATGCGATCCCACCAC	0.602													13	58	---	---	---	---	PASS
RBP3	5949	broad.mit.edu	37	10	48390628	48390628	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:48390628C>T	uc001jez.2	-	1	364	c.250G>A	c.(250-252)GAT>AAT	p.D84N		NM_002900	NP_002891	P10745	RET3_HUMAN	retinol-binding protein 3 precursor	84	4 X approximate tandem repeats.|1.				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)	AGGCGAGGATCGTTCAGGGAG	0.617													15	31	---	---	---	---	PASS
GDF2	2658	broad.mit.edu	37	10	48414135	48414135	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:48414135G>A	uc001jfa.1	-	2	896	c.733C>T	c.(733-735)CCC>TCC	p.P245S		NM_016204	NP_057288	Q9UK05	GDF2_HUMAN	growth differentiation factor 2 precursor	245					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						GAACCTGGGGGGACACTGATG	0.572													8	28	---	---	---	---	PASS
FRMPD2	143162	broad.mit.edu	37	10	49392620	49392620	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:49392620G>A	uc001jgi.2	-	20	2680	c.2573C>T	c.(2572-2574)TCT>TTT	p.S858F	FRMPD2_uc001jgh.2_Missense_Mutation_p.S826F|FRMPD2_uc001jgj.2_Missense_Mutation_p.S836F	NM_001018071	NP_001018081	Q68DX3	FRPD2_HUMAN	FERM and PDZ domain containing 2 isoform 3	858	PDZ 1.				tight junction assembly	basolateral plasma membrane|cytoplasm|cytoskeleton|tight junction	1-phosphatidylinositol binding|protein binding			large_intestine(1)	1				Kidney(211;0.201)		TTTTGACTGAGAAATAATTAA	0.428													12	24	---	---	---	---	PASS
C10orf72	196740	broad.mit.edu	37	10	50272791	50272791	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:50272791G>A	uc001jhf.2	-							NM_001031746	NP_001026916	Q8IW00	CJ072_HUMAN	hypothetical protein LOC196740 isoform 1							integral to membrane|plasma membrane					0						ACTGTGAAAGGAAAAATAATA	0.368													14	26	---	---	---	---	PASS
C10orf72	196740	broad.mit.edu	37	10	50315891	50315891	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:50315891C>T	uc001jhf.2	-	2	234	c.205G>A	c.(205-207)GAC>AAC	p.D69N	C10orf72_uc001jhh.2_Missense_Mutation_p.D69N	NM_001031746	NP_001026916	Q8IW00	CJ072_HUMAN	hypothetical protein LOC196740 isoform 1	69	Ig-like.|Extracellular (Potential).					integral to membrane|plasma membrane					0						TCCTGGGAGTCGAAGGAGTGT	0.607													13	18	---	---	---	---	PASS
OGDHL	55753	broad.mit.edu	37	10	50954808	50954808	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:50954808G>A	uc001jie.2	-	10	1426	c.1284C>T	c.(1282-1284)GTC>GTT	p.V428V	OGDHL_uc009xog.2_Silent_p.V455V|OGDHL_uc010qgt.1_Silent_p.V371V|OGDHL_uc010qgu.1_Silent_p.V219V|OGDHL_uc009xoh.2_Silent_p.V219V	NM_018245	NP_060715	Q9ULD0	OGDHL_HUMAN	oxoglutarate dehydrogenase-like isoform a	428					glycolysis	mitochondrial matrix	oxoglutarate dehydrogenase (succinyl-transferring) activity|thiamine pyrophosphate binding			pancreas(1)	1						GGTTGTTGACGACGACGTGCA	0.587													11	21	---	---	---	---	PASS
PARG	8505	broad.mit.edu	37	10	51556860	51556860	+	Intron	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:51556860A>G	uc001jih.2	-						uc010qha.1_Intron|uc001jin.2_Intron|uc010qhb.1_Intron|uc010qhc.1_Intron|MSMB_uc001jiq.2_Intron|MSMB_uc001jir.2_Intron	NM_003631	NP_003622	Q86W56	PARG_HUMAN	poly (ADP-ribose) glycohydrolase						carbohydrate metabolic process	nucleus	poly(ADP-ribose) glycohydrolase activity			ovary(2)	2				Epithelial(53;0.213)		GCACCCTGTAAGTCTCAAGCC	0.453													3	7	---	---	---	---	PASS
MBL2	4153	broad.mit.edu	37	10	54528129	54528129	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:54528129C>T	uc001jjt.2	-	4	580	c.515G>A	c.(514-516)GGA>GAA	p.G172E		NM_000242	NP_000233	P11226	MBL2_HUMAN	soluble mannose-binding lectin precursor	172	C-type lectin.				acute-phase response|complement activation, classical pathway|complement activation, lectin pathway|defense response to Gram-positive bacterium|negative regulation of growth of symbiont in host|opsonization|response to oxidative stress	collagen|extracellular space	bacterial cell surface binding|calcium-dependent protein binding|eukaryotic cell surface binding|mannose binding|receptor binding			ovary(1)	1						CTGAATGGCTCCATTCTCTGC	0.488													37	137	---	---	---	---	PASS
PCDH15	65217	broad.mit.edu	37	10	55569161	55569161	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:55569161A>G	uc010qhs.1	-	37	5059	c.4664T>C	c.(4663-4665)TTT>TCT	p.F1555S	PCDH15_uc010qhq.1_Intron|PCDH15_uc010qhr.1_Intron|PCDH15_uc010qht.1_Missense_Mutation_p.F1548S|PCDH15_uc010qhu.1_3'UTR	NM_001142769	NP_001136241	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD2-1 precursor	Error:Variant_position_missing_in_Q96QU1_after_alignment					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)				AACTTTCTTAAAAATCATGGG	0.413										HNSCC(58;0.16)			28	66	---	---	---	---	PASS
PCDH15	65217	broad.mit.edu	37	10	55943363	55943363	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:55943363G>A	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	Q96QU1	PCD15_HUMAN	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)				TCTTTGGGAGGAGAAAAATAC	0.363										HNSCC(58;0.16)			16	37	---	---	---	---	PASS
PCDH15	65217	broad.mit.edu	37	10	56106252	56106252	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:56106252G>A	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	Q96QU1	PCD15_HUMAN	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)				GAGCTGAAAGGAAAAAAGATT	0.343										HNSCC(58;0.16)			31	54	---	---	---	---	PASS
PCDH15	65217	broad.mit.edu	37	10	56423959	56423959	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:56423959C>T	uc001jju.1	-	2	459	c.64G>A	c.(64-66)GAA>AAA	p.E22K	PCDH15_uc010qhq.1_Missense_Mutation_p.E22K|PCDH15_uc010qhr.1_Missense_Mutation_p.E22K|PCDH15_uc010qhs.1_Missense_Mutation_p.E22K|PCDH15_uc010qht.1_Missense_Mutation_p.E22K|PCDH15_uc010qhu.1_Missense_Mutation_p.E22K|PCDH15_uc001jjv.1_Missense_Mutation_p.E22K|PCDH15_uc010qhv.1_Missense_Mutation_p.E22K|PCDH15_uc010qhw.1_Missense_Mutation_p.E22K|PCDH15_uc010qhx.1_Missense_Mutation_p.E22K|PCDH15_uc010qhy.1_Missense_Mutation_p.E22K|PCDH15_uc010qhz.1_Missense_Mutation_p.E22K|PCDH15_uc010qia.1_Missense_Mutation_p.E22K|PCDH15_uc010qib.1_Missense_Mutation_p.E22K|PCDH15_uc001jjw.2_Missense_Mutation_p.E22K	NM_033056	NP_149045	Q96QU1	PCD15_HUMAN	protocadherin 15 isoform CD1-4 precursor	22					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)				AAGCAGATTTCAAAGAGAGAG	0.393										HNSCC(58;0.16)			12	25	---	---	---	---	PASS
ANK3	288	broad.mit.edu	37	10	61834736	61834736	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:61834736A>C	uc001jky.2	-	37	6095	c.5903T>G	c.(5902-5904)GTA>GGA	p.V1968G	ANK3_uc001jkw.2_Intron|ANK3_uc009xpa.2_Intron|ANK3_uc001jkx.2_Intron|ANK3_uc010qih.1_Intron|ANK3_uc001jkz.3_Intron|ANK3_uc001jkv.2_Intron|ANK3_uc009xpb.1_Intron	NM_020987	NP_066267	Q12955	ANK3_HUMAN	ankyrin 3 isoform 1	1968					establishment of protein localization|signal transduction	basolateral plasma membrane|cytoplasm|cytoskeleton	protein binding			skin(9)|ovary(6)|pancreas(2)|central_nervous_system(2)	19						TTTATTATCTACACATACATC	0.373													10	28	---	---	---	---	PASS
TMEM26	219623	broad.mit.edu	37	10	63196016	63196016	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:63196016G>A	uc001jlo.2	-						TMEM26_uc010qij.1_Intron|TMEM26_uc001jlq.2_Intron	NM_178505	NP_848600	Q6ZUK4	TMM26_HUMAN	transmembrane protein 26							integral to membrane					0	Prostate(12;0.0112)					CCTGTGAAAAGAGAGAAGAAA	0.323													6	11	---	---	---	---	PASS
EGR2	1959	broad.mit.edu	37	10	64573279	64573279	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:64573279C>T	uc010qim.1	-	3	1273	c.1119G>A	c.(1117-1119)CGG>CGA	p.R373R	EGR2_uc010qin.1_Silent_p.R323R|EGR2_uc001jmi.2_Silent_p.R373R|EGR2_uc010qio.1_Silent_p.R386R|EGR2_uc009xph.2_Silent_p.R373R	NM_001136177	NP_001129649	P11161	EGR2_HUMAN	early growth response 2 protein isoform a	373	C2H2-type 2.				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)					GCATGCAGATCCGACACTGGA	0.617													17	72	---	---	---	---	PASS
EGR2	1959	broad.mit.edu	37	10	64573280	64573280	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:64573280C>T	uc010qim.1	-	3	1272	c.1118G>A	c.(1117-1119)CGG>CAG	p.R373Q	EGR2_uc010qin.1_Missense_Mutation_p.R323Q|EGR2_uc001jmi.2_Missense_Mutation_p.R373Q|EGR2_uc010qio.1_Missense_Mutation_p.R386Q|EGR2_uc009xph.2_Missense_Mutation_p.R373Q	NM_001136177	NP_001129649	P11161	EGR2_HUMAN	early growth response 2 protein isoform a	373	C2H2-type 2.				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)					CATGCAGATCCGACACTGGAA	0.617													17	72	---	---	---	---	PASS
EGR2	1959	broad.mit.edu	37	10	64573955	64573955	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:64573955G>A	uc010qim.1	-	3	597	c.443C>T	c.(442-444)CCC>CTC	p.P148L	EGR2_uc010qin.1_Missense_Mutation_p.P98L|EGR2_uc001jmi.2_Missense_Mutation_p.P148L|EGR2_uc010qio.1_Missense_Mutation_p.P161L|EGR2_uc009xph.2_Missense_Mutation_p.P148L	NM_001136177	NP_001129649	P11161	EGR2_HUMAN	early growth response 2 protein isoform a	148					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)					CACACCCAGGGGTCCTGTGGC	0.617													7	28	---	---	---	---	PASS
CTNNA3	29119	broad.mit.edu	37	10	68979601	68979601	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:68979601C>T	uc009xpn.1	-	6	730	c.607G>A	c.(607-609)GAA>AAA	p.E203K	CTNNA3_uc001jmw.2_Missense_Mutation_p.E203K|CTNNA3_uc001jmx.3_Missense_Mutation_p.E203K|CTNNA3_uc009xpo.1_Missense_Mutation_p.E63K|CTNNA3_uc001jna.2_Missense_Mutation_p.E215K	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	catenin, alpha 3	203					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						CCTGCAATTTCATCTCTCTGA	0.398													11	35	---	---	---	---	PASS
DNAJC12	56521	broad.mit.edu	37	10	69583138	69583138	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:69583138G>A	uc001jnb.2	-	2	259	c.91C>T	c.(91-93)CTG>TTG	p.L31L	DNAJC12_uc001jnc.2_Silent_p.L31L	NM_021800	NP_068572	Q9UKB3	DJC12_HUMAN	J domain containing protein 1 isoform a	31	J.				protein folding		heat shock protein binding|unfolded protein binding			breast(1)	1						AATTCTGCCAGGATTTGTTCA	0.274													15	33	---	---	---	---	PASS
CCAR1	55749	broad.mit.edu	37	10	70507168	70507168	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:70507168C>T	uc001joo.2	+	8	790	c.671C>T	c.(670-672)CCT>CTT	p.P224L	CCAR1_uc001jol.1_RNA|CCAR1_uc001jom.1_Missense_Mutation_p.P29L|CCAR1_uc009xpx.1_Missense_Mutation_p.P198L|CCAR1_uc001jon.1_Missense_Mutation_p.P170L|CCAR1_uc010qiz.1_Missense_Mutation_p.P209L|CCAR1_uc010qja.1_Missense_Mutation_p.P209L|CCAR1_uc010qjb.1_RNA	NM_018237	NP_060707	Q8IX12	CCAR1_HUMAN	cell-cycle and apoptosis regulatory protein 1	224					apoptosis|cell cycle|nuclear mRNA splicing, via spliceosome|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleoplasm|perinuclear region of cytoplasm	calcium ion binding|nucleic acid binding|protein binding			ovary(6)|large_intestine(1)	7						AAGACTCCTCCTGCTGTACTT	0.418													28	55	---	---	---	---	PASS
VPS26A	9559	broad.mit.edu	37	10	70917876	70917876	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:70917876C>T	uc001jpb.2	+	5	586	c.460C>T	c.(460-462)CTT>TTT	p.L154F	VPS26A_uc001jpc.2_Missense_Mutation_p.L154F|VPS26A_uc009xqa.2_Missense_Mutation_p.L147F|VPS26A_uc001jpd.2_Missense_Mutation_p.L43F	NM_004896	NP_004887	O75436	VP26A_HUMAN	vacuolar protein sorting 26 A isoform 1	154					retrograde transport, endosome to Golgi|vacuolar transport	cytosol|endosome membrane|retromer complex|vesicle	protein binding|protein transporter activity				0						TGTTCACCAGCTTGCCACCTA	0.328													10	42	---	---	---	---	PASS
HKDC1	80201	broad.mit.edu	37	10	71010037	71010037	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:71010037C>T	uc001jpf.3	+						HKDC1_uc010qje.1_Intron	NM_025130	NP_079406	Q2TB90	HKDC1_HUMAN	hexokinase domain containing 1						glycolysis	mitochondrion|nucleus	ATP binding|hexokinase activity			ovary(4)|skin(1)	5						GCTGCTTTCTCCATCACAGAG	0.582													68	107	---	---	---	---	PASS
H2AFY2	55506	broad.mit.edu	37	10	71860028	71860028	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:71860028C>T	uc001jqm.2	+	7	1212	c.753C>T	c.(751-753)TCC>TCT	p.S251S	H2AFY2_uc001jqn.2_RNA|AIFM2_uc010qjg.1_Intron	NM_018649	NP_061119	Q9P0M6	H2AW_HUMAN	H2A histone family, member Y2	251	Macro.				chromatin modification|dosage compensation|nucleosome assembly	Barr body|nucleosome	DNA binding			skin(1)	1						TTCGCAAATCCCAAGGCCCTT	0.547													8	10	---	---	---	---	PASS
AIFM2	84883	broad.mit.edu	37	10	71877624	71877624	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:71877624G>A	uc010qjg.1	-	5	573	c.560C>T	c.(559-561)TCC>TTC	p.S187F	AIFM2_uc001jqp.1_Missense_Mutation_p.S187F	NM_032797	NP_116186	Q9BRQ8	AIFM2_HUMAN	apoptosis-inducing factor (AIF)-like	187					apoptotic mitochondrial changes|chromosome condensation|induction of apoptosis	cytosol|integral to membrane|mitochondrial outer membrane	DNA binding|electron-transferring-flavoprotein dehydrogenase activity|flavin adenine dinucleotide binding			central_nervous_system(1)	1						CTGCCGGACGGAGGGCAGGAG	0.632													10	28	---	---	---	---	PASS
PRF1	5551	broad.mit.edu	37	10	72358637	72358637	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:72358637C>T	uc009xqg.2	-	3	1001	c.840G>A	c.(838-840)GAG>GAA	p.E280E	PRF1_uc001jrf.3_Silent_p.E280E	NM_001083116	NP_001076585	P14222	PERF_HUMAN	perforin 1 precursor	280	MACPF.				apoptosis|cellular defense response|cytolysis|defense response to tumor cell|defense response to virus|immune response to tumor cell|protein homooligomerization	cytolytic granule|endosome lumen|extracellular region|integral to membrane|plasma membrane	calcium ion binding|protein binding|wide pore channel activity			large_intestine(1)|ovary(1)|central_nervous_system(1)	3						TCTTCTTCTCCTCACAGGCCT	0.592			M			various leukaemia|lymphoma	Type 2 familial hemophagocytic lymphohistiocytosis		Familial_Hemophagocytic_Lymphohistiocytosis				11	32	---	---	---	---	PASS
CDH23	64072	broad.mit.edu	37	10	73567419	73567419	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:73567419C>T	uc001jrx.3	+	57	8832	c.8455C>T	c.(8455-8457)CCA>TCA	p.P2819S	CDH23_uc001jsg.3_Missense_Mutation_p.P579S|CDH23_uc001jsh.3_Missense_Mutation_p.P579S|CDH23_uc001jsi.3_Missense_Mutation_p.P579S	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor	2819	Cadherin 26.|Extracellular (Potential).				calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						TGGACCCTCCCCAACCCTCGA	0.622													9	18	---	---	---	---	PASS
CCDC109A	90550	broad.mit.edu	37	10	74628517	74628517	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:74628517C>A	uc001jtc.2	+	5	574	c.553C>A	c.(553-555)CAA>AAA	p.Q185K	CCDC109A_uc009xqp.1_RNA|CCDC109A_uc009xqq.1_RNA|CCDC109A_uc010qjy.1_RNA|CCDC109A_uc009xqr.2_Intron|CCDC109A_uc001jtd.2_Missense_Mutation_p.Q136K	NM_138357	NP_612366	Q8NE86	MCU_HUMAN	coiled-coil domain containing 109A	185	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)					ATTGGTCCAGCAACTATACAC	0.403													4	69	---	---	---	---	PASS
CCDC109A	90550	broad.mit.edu	37	10	74631134	74631134	+	Splice_Site	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:74631134G>A	uc001jtc.2	+	6	679	c.658_splice	c.e6-1	p.V220_splice	CCDC109A_uc009xqp.1_Splice_Site|CCDC109A_uc009xqq.1_Splice_Site|CCDC109A_uc010qjy.1_Splice_Site|CCDC109A_uc009xqr.2_Splice_Site_p.V199_splice|CCDC109A_uc001jtd.2_Splice_Site_p.V171_splice	NM_138357	NP_612366	Q8NE86	MCU_HUMAN	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)					GTGCCCAATAGGTACGAATTG	0.433													40	145	---	---	---	---	PASS
P4HA1	5033	broad.mit.edu	37	10	74790090	74790090	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:74790090C>T	uc010qka.1	-	11	1521	c.1187G>A	c.(1186-1188)CGA>CAA	p.R396Q	P4HA1_uc001jtg.2_Missense_Mutation_p.R396Q|P4HA1_uc001jth.2_Missense_Mutation_p.R396Q|P4HA1_uc010qkb.1_Missense_Mutation_p.R396Q|P4HA1_uc001jti.2_RNA	NM_001142595	NP_001136067	P13674	P4HA1_HUMAN	prolyl 4-hydroxylase, alpha I subunit isoform 2	396						endoplasmic reticulum lumen|mitochondrion	iron ion binding|L-ascorbic acid binding|oxidoreductase activity, acting on single donors with incorporation of molecular oxygen, incorporation of two atoms of oxygen|procollagen-proline 4-dioxygenase activity			ovary(1)	1	Prostate(51;0.0198)				Hydralazine(DB01275)|L-Proline(DB00172)|Succinic acid(DB00139)|Vitamin C(DB00126)	CATATTAATTCGAGACACCAC	0.353													9	18	---	---	---	---	PASS
ANXA7	310	broad.mit.edu	37	10	75157985	75157985	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:75157985G>A	uc001jtz.2	-	3	286	c.213C>T	c.(211-213)GGC>GGT	p.G71G	ANXA7_uc001jua.2_Silent_p.G71G|ANXA7_uc001jub.2_Silent_p.G31G|ANXA7_uc010qki.1_Silent_p.G31G|ANXA7_uc009xre.2_Intron|ANXA7_uc009xrf.1_Splice_Site_p.G71_splice	NM_004034	NP_004025	P20073	ANXA7_HUMAN	annexin VII isoform 2	71	Repeat-rich region.						calcium ion binding|calcium-dependent phospholipid binding|calcium-dependent protein binding			ovary(2)|central_nervous_system(1)	3	Prostate(51;0.0119)					CACCAGGATAGCCTCCAGGGG	0.577													4	19	---	---	---	---	PASS
PPP3CB	5532	broad.mit.edu	37	10	75239120	75239120	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:75239120G>A	uc001jue.2	-	2	376	c.241C>T	c.(241-243)CTT>TTT	p.L81F	PPP3CB_uc001juf.2_Missense_Mutation_p.L81F|PPP3CB_uc001jug.2_Missense_Mutation_p.L81F|PPP3CB_uc001jui.2_Missense_Mutation_p.L81F|PPP3CB_uc001juh.2_5'UTR	NM_021132	NP_066955	P16298	PP2BB_HUMAN	protein phosphatase 3, catalytic subunit, beta	81	Catalytic.									skin(1)	1	Prostate(51;0.0119)					TCTCTCCGAAGGATGGCAGCA	0.393													31	94	---	---	---	---	PASS
KIAA0913	23053	broad.mit.edu	37	10	75557002	75557002	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:75557002C>T	uc009xrl.2	+	17	3423	c.3391C>T	c.(3391-3393)CCA>TCA	p.P1131S	KIAA0913_uc001jve.2_Missense_Mutation_p.P1136S|KIAA0913_uc001jvf.2_Missense_Mutation_p.P1131S|KIAA0913_uc001jvh.2_RNA|KIAA0913_uc001jvi.2_Missense_Mutation_p.P566S|KIAA0913_uc010qkr.1_Missense_Mutation_p.P554S|KIAA0913_uc001jvj.2_Missense_Mutation_p.P554S|KIAA0913_uc009xrn.1_5'Flank	NM_015037	NP_055852	A7E2V4	K0913_HUMAN	hypothetical protein LOC23053	1131							zinc ion binding			breast(1)	1	Prostate(51;0.0112)					ATGGGGGTCCCCAGGACGGCC	0.557													10	13	---	---	---	---	PASS
KIAA0913	23053	broad.mit.edu	37	10	75557617	75557617	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:75557617C>T	uc009xrl.2	+	19	3758	c.3726C>T	c.(3724-3726)TTC>TTT	p.F1242F	KIAA0913_uc001jve.2_Silent_p.F1247F|KIAA0913_uc001jvf.2_Silent_p.F1242F|KIAA0913_uc001jvh.2_Intron|KIAA0913_uc001jvi.2_Silent_p.F677F|KIAA0913_uc010qkr.1_Silent_p.F665F|KIAA0913_uc001jvj.2_Silent_p.F665F|KIAA0913_uc009xrn.1_5'Flank	NM_015037	NP_055852	A7E2V4	K0913_HUMAN	hypothetical protein LOC23053	1242							zinc ion binding			breast(1)	1	Prostate(51;0.0112)					ACTTCTACTTCGAGCTGGCGA	0.597													16	32	---	---	---	---	PASS
MYST4	23522	broad.mit.edu	37	10	76781946	76781946	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:76781946C>T	uc001jwn.1	+	16	3822	c.3329C>T	c.(3328-3330)CCC>CTC	p.P1110L	MYST4_uc001jwm.1_Missense_Mutation_p.P818L|MYST4_uc001jwo.1_Missense_Mutation_p.P818L|MYST4_uc001jwp.1_Missense_Mutation_p.P927L	NM_012330	NP_036462	Q8WYB5	MYST4_HUMAN	MYST histone acetyltransferase (monocytic	1110					histone H3 acetylation|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 factor binding|zinc ion binding			central_nervous_system(5)|ovary(4)|lung(3)|breast(2)|skin(1)|prostate(1)	16	all_cancers(46;0.0347)|all_epithelial(25;0.00236)|Prostate(51;0.0112)|Ovarian(15;0.0964)					CAAAGCTCTCCCCCAAGATTG	0.224			T	CREBBP	AML						OREG0020273	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	40	---	---	---	---	PASS
DUSP13	51207	broad.mit.edu	37	10	76861646	76861646	+	3'UTR	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:76861646G>T	uc001jws.2	-	5					DUSP13_uc001jwr.2_5'Flank|DUSP13_uc001jwu.2_Missense_Mutation_p.A86D|DUSP13_uc001jww.2_Intron|DUSP13_uc009xrs.2_Missense_Mutation_p.A86D|DUSP13_uc001jwt.2_Missense_Mutation_p.A86D|DUSP13_uc001jwv.2_5'UTR	NM_001007271	NP_001007272	Q6B8I1	MDSP_HUMAN	muscle-restricted dual specificity phosphatase							cytoplasm	protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity				0	all_cancers(46;0.0207)|all_epithelial(25;0.00126)|Prostate(51;0.0112)|Ovarian(15;0.0348)					TCTGGCCCAGGCTGTGCACTT	0.527													6	76	---	---	---	---	PASS
DLG5	9231	broad.mit.edu	37	10	79566528	79566528	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:79566528G>A	uc001jzk.2	-	26	5025	c.4955C>T	c.(4954-4956)CCC>CTC	p.P1652L	DLG5_uc001jzi.2_Missense_Mutation_p.P407L|DLG5_uc001jzj.2_Missense_Mutation_p.P1067L|DLG5_uc009xru.1_RNA	NM_004747	NP_004738	Q8TDM6	DLG5_HUMAN	discs large homolog 5	1652	SH3.				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)			ATATTTGCTGGGAATCTGCCC	0.642													19	44	---	---	---	---	PASS
POLR3A	11128	broad.mit.edu	37	10	79745903	79745903	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:79745903G>A	uc001jzn.2	-	22	3010	c.2916C>T	c.(2914-2916)TTC>TTT	p.F972F		NM_007055	NP_008986	O14802	RPC1_HUMAN	polymerase (RNA) III (DNA directed) polypeptide	972					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	DNA-directed RNA polymerase III complex	DNA binding|DNA-directed RNA polymerase activity|ribonucleoside binding|zinc ion binding				0	all_cancers(46;0.0356)|all_epithelial(25;0.00102)|Breast(12;0.00124)|Prostate(51;0.0095)		Epithelial(14;0.00161)|OV - Ovarian serous cystadenocarcinoma(4;0.00323)|all cancers(16;0.00646)			CCCCCTTAATGAATTTTTTTA	0.358													13	27	---	---	---	---	PASS
MAT1A	4143	broad.mit.edu	37	10	82040000	82040000	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:82040000G>A	uc001kbw.2	-	5	733	c.478C>T	c.(478-480)CTC>TTC	p.L160F		NM_000429	NP_000420	Q00266	METK1_HUMAN	methionine adenosyltransferase I, alpha	160					methylation|S-adenosylmethionine biosynthetic process|xenobiotic metabolic process	cytosol	ATP binding|metal ion binding|methionine adenosyltransferase activity				0			Colorectal(32;0.229)		L-Methionine(DB00134)|S-Adenosylmethionine(DB00118)	CGGGCGTTGAGCTTGTGAGCA	0.622													23	37	---	---	---	---	PASS
CDHR1	92211	broad.mit.edu	37	10	85968083	85968083	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:85968083C>T	uc001kcv.2	+	11	1117	c.1117C>T	c.(1117-1119)CAG>TAG	p.Q373*	CDHR1_uc001kcw.2_Nonsense_Mutation_p.Q373*|CDHR1_uc009xst.2_Nonsense_Mutation_p.Q132*	NM_033100	NP_149091	Q96JP9	CDHR1_HUMAN	protocadherin 21 precursor	373	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion		calcium ion binding|receptor activity			ovary(1)	1						GCACCCACCCCAGGGAGAGAT	0.567													12	21	---	---	---	---	PASS
LRIT1	26103	broad.mit.edu	37	10	85991971	85991971	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:85991971G>A	uc001kcz.1	-	4	1606	c.1584C>T	c.(1582-1584)ATC>ATT	p.I528I		NM_015613	NP_056428	Q9P2V4	LRIT1_HUMAN	retina specific protein PAL	528	Helical; (Potential).					integral to endoplasmic reticulum membrane					0						CCACCACATTGATAAGCTGCT	0.547													6	18	---	---	---	---	PASS
RGR	5995	broad.mit.edu	37	10	86012761	86012761	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:86012761G>A	uc001kdc.1	+	4	545	c.507G>A	c.(505-507)GGG>GGA	p.G169G	RGR_uc001kdd.1_Silent_p.G173G|RGR_uc001kde.1_Silent_p.G169G	NM_001012720	NP_001012738	P47804	RGR_HUMAN	retinal G-protein coupled receptor isoform 2	169	Extracellular (Potential).				phototransduction|protein-chromophore linkage|visual perception	integral to plasma membrane	G-protein coupled receptor activity|photoreceptor activity|protein binding			ovary(1)	1						ACTCCAAGGGGGACAGGTGAG	0.577													6	25	---	---	---	---	PASS
FAM190B	54462	broad.mit.edu	37	10	86198290	86198290	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:86198290C>T	uc001kdh.1	+	6	2085	c.1891C>T	c.(1891-1893)CCT>TCT	p.P631S	FAM190B_uc010qmd.1_Missense_Mutation_p.P631S|FAM190B_uc001kdi.1_Intron|FAM190B_uc010qme.1_Missense_Mutation_p.P58S	NM_018999	NP_061872	Q9H7U1	F190B_HUMAN	granule cell antiserum positive 14	631										ovary(3)|skin(1)	4						TAGAGAATCTCCTTTGGGTCA	0.393													36	45	---	---	---	---	PASS
GRID1	2894	broad.mit.edu	37	10	87373363	87373363	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:87373363T>C	uc001kdl.1	-	15	2503	c.2402A>G	c.(2401-2403)AAG>AGG	p.K801R	GRID1_uc009xsu.1_RNA|GRID1_uc010qmf.1_Missense_Mutation_p.K372R	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	801	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	CCACTTCTGCTTCAGCACATC	0.617										Multiple Myeloma(13;0.14)			23	21	---	---	---	---	PASS
GRID1	2894	broad.mit.edu	37	10	87628904	87628904	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:87628904G>A	uc001kdl.1	-	6	915	c.814C>T	c.(814-816)CAT>TAT	p.H272Y	GRID1_uc009xsu.1_RNA	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	272	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	AGGGCACTATGGACCAGATCC	0.507										Multiple Myeloma(13;0.14)			28	44	---	---	---	---	PASS
GRID1	2894	broad.mit.edu	37	10	87628913	87628913	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:87628913C>T	uc001kdl.1	-	6	906	c.805G>A	c.(805-807)GAT>AAT	p.D269N	GRID1_uc009xsu.1_RNA	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	269	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	TGGACCAGATCCAGGATCTCC	0.498										Multiple Myeloma(13;0.14)			19	52	---	---	---	---	PASS
GRID1	2894	broad.mit.edu	37	10	88123702	88123702	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:88123702C>T	uc001kdl.1	-	2	332	c.231G>A	c.(229-231)CAG>CAA	p.Q77Q	GRID1_uc009xsu.1_RNA	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	glutamate receptor, ionotropic, delta 1	77	Extracellular (Potential).					cell junction|integral to membrane|outer membrane-bounded periplasmic space|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|ionotropic glutamate receptor activity			ovary(5)|upper_aerodigestive_tract(2)|large_intestine(2)|central_nervous_system(1)	10					L-Glutamic Acid(DB00142)	ACTCACCTTCCTGCACAGCCT	0.637										Multiple Myeloma(13;0.14)			17	37	---	---	---	---	PASS
LDB3	11155	broad.mit.edu	37	10	88441531	88441531	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:88441531G>A	uc001kdv.2	+	4	683	c.660G>A	c.(658-660)GGG>GGA	p.G220G	LDB3_uc010qml.1_Silent_p.G220G|LDB3_uc010qmm.1_Silent_p.G220G|LDB3_uc001kdu.2_Intron|LDB3_uc009xsz.2_Intron|LDB3_uc001kdr.2_Intron|LDB3_uc009xsy.2_Silent_p.G220G|LDB3_uc001kds.2_Silent_p.G220G|LDB3_uc001kdt.2_RNA	NM_007078	NP_009009	O75112	LDB3_HUMAN	LIM domain binding 3 isoform 1	220						cytoskeleton|perinuclear region of cytoplasm|pseudopodium	zinc ion binding			ovary(1)	1						GCCTCCGAGGGAAGGCCTCGG	0.627													25	36	---	---	---	---	PASS
ATAD1	84896	broad.mit.edu	37	10	89516631	89516631	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:89516631A>G	uc001key.1	-	8	1163	c.880T>C	c.(880-882)TTT>CTT	p.F294L	ATAD1_uc010qmr.1_Missense_Mutation_p.F206L|ATAD1_uc009xth.1_RNA|ATAD1_uc001kez.1_Missense_Mutation_p.F294L	NM_032810	NP_116199	Q8NBU5	ATAD1_HUMAN	ATPase family, AAA domain containing 1	294						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)		CTTCCTGAAAACCCATCAGTT	0.348													14	42	---	---	---	---	PASS
LIPJ	142910	broad.mit.edu	37	10	90356157	90356157	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:90356157G>A	uc001kff.2	+	7	874	c.560G>A	c.(559-561)TGG>TAG	p.W187*		NM_001010939	NP_001010939	Q5W064	LIPJ_HUMAN	lipase, family member J	187					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)		ACATACAAATGGAAGTCAATA	0.284													8	19	---	---	---	---	PASS
FAS	355	broad.mit.edu	37	10	90762814	90762814	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:90762814C>T	uc001kfr.2	+	2	405	c.59C>T	c.(58-60)TCC>TTC	p.S20F	FAS_uc010qna.1_RNA|FAS_uc001kfs.2_Missense_Mutation_p.S20F|FAS_uc001kft.2_Missense_Mutation_p.S20F|FAS_uc010qnb.1_RNA|FAS_uc010qnc.1_RNA|FAS_uc001kfw.2_Missense_Mutation_p.S20F|FAS_uc010qnd.1_RNA|FAS_uc010qne.1_RNA|FAS_uc009xtp.2_RNA	NM_000043	NP_000034	P25445	TNR6_HUMAN	tumor necrosis factor receptor superfamily,	20					activation of caspase activity|activation of pro-apoptotic gene products|anti-apoptosis|cellular response to mechanical stimulus|positive regulation of necrotic cell death	cytosol|extracellular region|integral to membrane|soluble fraction	identical protein binding|kinase binding			upper_aerodigestive_tract(1)|breast(1)	2		Colorectal(252;0.0161)		Colorectal(12;0.000136)|COAD - Colon adenocarcinoma(12;0.000193)		AGATTATCGTCCAAAAGTGTT	0.393									Autoimmune_Lymphoproliferative_syndrome_type_I				22	38	---	---	---	---	PASS
PPP1R3C	5507	broad.mit.edu	37	10	93389948	93389948	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:93389948C>T	uc001kho.2	-	2	822	c.690G>A	c.(688-690)CAG>CAA	p.Q230Q		NM_005398	NP_005389	Q9UQK1	PPR3C_HUMAN	protein phosphatase 1, regulatory (inhibitor)	230	Interaction with EPM2A.|CBM21.						protein serine/threonine phosphatase activity			breast(1)	1		Colorectal(252;0.235)				ACTCAATTTTCTGCTCAGTTG	0.403													25	36	---	---	---	---	PASS
PLCE1	51196	broad.mit.edu	37	10	96006327	96006327	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:96006327C>T	uc001kjk.2	+	8	3679	c.3045C>T	c.(3043-3045)TTC>TTT	p.F1015F	PLCE1_uc010qnx.1_Silent_p.F1015F|PLCE1_uc001kjm.2_Silent_p.F707F	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	1015					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)				TGAGGAAATTCCCTGACCAAA	0.438													4	36	---	---	---	---	PASS
PLCE1	51196	broad.mit.edu	37	10	96084289	96084289	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:96084289G>A	uc001kjk.2	+	31	7319	c.6685G>A	c.(6685-6687)GGA>AGA	p.G2229R	PLCE1_uc010qnx.1_Missense_Mutation_p.G2213R|PLCE1_uc001kjm.2_Missense_Mutation_p.G1921R|PLCE1_uc001kjp.2_Missense_Mutation_p.G587R	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	2229	Ras-associating 2.				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)				GAAAGGTGCAGGAAAATTCAT	0.428													59	72	---	---	---	---	PASS
PLCE1	51196	broad.mit.edu	37	10	96084290	96084290	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:96084290G>A	uc001kjk.2	+	31	7320	c.6686G>A	c.(6685-6687)GGA>GAA	p.G2229E	PLCE1_uc010qnx.1_Missense_Mutation_p.G2213E|PLCE1_uc001kjm.2_Missense_Mutation_p.G1921E|PLCE1_uc001kjp.2_Missense_Mutation_p.G587E	NM_016341	NP_057425	Q9P212	PLCE1_HUMAN	phospholipase C, epsilon 1 isoform 1	2229	Ras-associating 2.				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)				AAAGGTGCAGGAAAATTCATC	0.433													56	70	---	---	---	---	PASS
CYP2C19	1557	broad.mit.edu	37	10	96522510	96522510	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:96522510C>T	uc010qnz.1	+	1	48	c.48C>T	c.(46-48)CTC>CTT	p.L16L	CYP2C19_uc009xus.1_Intron|CYP2C19_uc010qny.1_Intron	NM_000769	NP_000760	P33261	CP2CJ_HUMAN	cytochrome P450, family 2, subfamily C,	16					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)	GTTTGCTTCTCCTTTCAATCT	0.463													34	105	---	---	---	---	PASS
CYP2C19	1557	broad.mit.edu	37	10	96541623	96541623	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:96541623C>T	uc010qnz.1	+	5	688	c.688C>T	c.(688-690)CAT>TAT	p.H230Y	CYP2C19_uc009xus.1_Missense_Mutation_p.H95Y|CYP2C19_uc010qny.1_Missense_Mutation_p.H208Y	NM_000769	NP_000760	P33261	CP2CJ_HUMAN	cytochrome P450, family 2, subfamily C,	230					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)	CCCGGGAACCCATAACAAATT	0.303													12	30	---	---	---	---	PASS
CYP2C19	1557	broad.mit.edu	37	10	96541692	96541692	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:96541692G>A	uc010qnz.1	+	5	757	c.757G>A	c.(757-759)GAA>AAA	p.E253K	CYP2C19_uc009xus.1_Missense_Mutation_p.E118K|CYP2C19_uc010qny.1_Missense_Mutation_p.E231K	NM_000769	NP_000760	P33261	CP2CJ_HUMAN	cytochrome P450, family 2, subfamily C,	253					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)	AGAACACCAAGAATCGATGGA	0.358													23	47	---	---	---	---	PASS
SORBS1	10580	broad.mit.edu	37	10	97194428	97194428	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:97194428G>A	uc001kkp.2	-	3	168	c.123C>T	c.(121-123)ATC>ATT	p.I41I	SORBS1_uc001kkn.2_Intron|SORBS1_uc001kkm.2_Silent_p.I29I|SORBS1_uc001kko.2_Silent_p.I41I|SORBS1_uc001kkq.2_Silent_p.I41I|SORBS1_uc001kkr.2_Intron|SORBS1_uc001kks.2_Intron|SORBS1_uc001kkt.2_Intron|SORBS1_uc001kku.2_Silent_p.I41I|SORBS1_uc001kkv.2_Intron|SORBS1_uc001kkw.2_Silent_p.I41I|SORBS1_uc010qoe.1_Intron|SORBS1_uc010qof.1_Intron|SORBS1_uc001kkx.1_Intron	NM_001034954	NP_001030126	Q9BX66	SRBS1_HUMAN	sorbin and SH3 domain containing 1 isoform 3	41					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)		TCACAGGAATGATTTTAACAG	0.463													14	51	---	---	---	---	PASS
ZNF518A	9849	broad.mit.edu	37	10	97918954	97918954	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:97918954C>T	uc001klp.2	+	6	3732	c.2875C>T	c.(2875-2877)CCA>TCA	p.P959S	ZNF518A_uc001klo.1_Missense_Mutation_p.P429S|ZNF518A_uc001klq.2_Missense_Mutation_p.P959S|ZNF518A_uc001klr.2_Missense_Mutation_p.P959S	NM_014803	NP_055618	Q6AHZ1	Z518A_HUMAN	zinc finger protein 518	959					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(252;0.0815)		Epithelial(162;4.23e-08)|all cancers(201;1.85e-06)		AAATGCACTTCCATTGGTTAA	0.358													25	74	---	---	---	---	PASS
BLNK	29760	broad.mit.edu	37	10	98002543	98002543	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:98002543G>A	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	Q8WV28	BLNK_HUMAN	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)		CTTTTAGCCTGGAAATAACAA	0.398													15	30	---	---	---	---	PASS
TM9SF3	56889	broad.mit.edu	37	10	98303964	98303964	+	Splice_Site	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:98303964C>T	uc001kmm.3	-	9	1272	c.1055_splice	c.e9-1	p.G352_splice	TM9SF3_uc010qot.1_Splice_Site_p.G352_splice|TM9SF3_uc001kmn.1_Intron	NM_020123	NP_064508	Q9HD45	TM9S3_HUMAN	transmembrane 9 superfamily member 3 precursor							integral to membrane	binding				0		Colorectal(252;0.158)		Epithelial(162;1.84e-09)|all cancers(201;2.84e-08)		CATCTCCTTCCTGAAAAGAAA	0.299													7	18	---	---	---	---	PASS
C10orf12	26148	broad.mit.edu	37	10	98742645	98742645	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:98742645C>T	uc001kmv.2	+	1	1605	c.1498C>T	c.(1498-1500)CCT>TCT	p.P500S		NM_015652	NP_056467	Q8N655	CJ012_HUMAN	hypothetical protein LOC26148	500										skin(2)	2		Colorectal(252;0.172)		Epithelial(162;6.35e-09)|all cancers(201;3.21e-07)		TAAAAAATTCCCTGAGGCCTC	0.418													35	65	---	---	---	---	PASS
SLIT1	6585	broad.mit.edu	37	10	98766300	98766300	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:98766300C>T	uc001kmw.2	-	32	3771	c.3519G>A	c.(3517-3519)CGG>CGA	p.R1173R		NM_003061	NP_003052	O75093	SLIT1_HUMAN	slit homolog 1 precursor	1173	Laminin G-like.				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)		GGTAAGTGTCCCGATCCACAA	0.597													11	11	---	---	---	---	PASS
SLIT1	6585	broad.mit.edu	37	10	98766422	98766422	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:98766422C>T	uc001kmw.2	-	32	3649	c.3397G>A	c.(3397-3399)GGG>AGG	p.G1133R		NM_003061	NP_003052	O75093	SLIT1_HUMAN	slit homolog 1 precursor	1133	EGF-like 6.				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)		CACTCAGTCCCCTCACAGGGG	0.607													12	9	---	---	---	---	PASS
MMS19	64210	broad.mit.edu	37	10	99236728	99236728	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:99236728G>A	uc001kns.3	-						MMS19_uc009xvt.2_Intron|MMS19_uc001knr.2_Intron|MMS19_uc010qox.1_Intron|MMS19_uc001knt.2_Intron|MMS19_uc001knu.1_Intron	NM_022362	NP_071757	Q96T76	MMS19_HUMAN	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)		GCTCTGGGAAGGAGAGAATAA	0.507								Direct_reversal_of_damage|NER					19	55	---	---	---	---	PASS
MORN4	118812	broad.mit.edu	37	10	99376965	99376965	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:99376965C>T	uc001kob.3	-	3	453	c.182G>A	c.(181-183)AGG>AAG	p.R61K	PI4K2A_uc010qoy.1_Intron|MORN4_uc001koc.3_Missense_Mutation_p.R119K|MORN4_uc001kod.3_3'UTR|MORN4_uc001koe.2_Missense_Mutation_p.R61K|uc001kof.1_5'Flank	NM_178832	NP_849154	Q8NDC4	MORN4_HUMAN	MORN repeat containing 4	61	MORN 2.										0						TCATACCCACCTTGAACCATC	0.448													37	65	---	---	---	---	PASS
DNMBP	23268	broad.mit.edu	37	10	101643884	101643884	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:101643884C>T	uc001kqj.2	-	15	3973	c.3881G>A	c.(3880-3882)CGG>CAG	p.R1294Q	DNMBP_uc010qpl.1_Missense_Mutation_p.R230Q|DNMBP_uc001kqg.2_Missense_Mutation_p.R582Q|DNMBP_uc001kqh.2_Missense_Mutation_p.R926Q	NM_015221	NP_056036	Q6XZF7	DNMBP_HUMAN	dynamin binding protein	1294	SH3 5.				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)		ATTGAAGTTCCGTTCTGCCTG	0.512													14	26	---	---	---	---	PASS
FAM178A	55719	broad.mit.edu	37	10	102683984	102683984	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:102683984C>T	uc001krt.3	+	5	1768	c.1226C>T	c.(1225-1227)CCT>CTT	p.P409L	FAM178A_uc001krr.1_Missense_Mutation_p.P409L|FAM178A_uc001krs.2_Missense_Mutation_p.P409L|FAM178A_uc001kru.1_Missense_Mutation_p.P344L	NM_018121	NP_060591	Q8IX21	F178A_HUMAN	hypothetical protein LOC55719 isoform 1	409											0						GGCTTGGCACCTTCAAATTCT	0.463													27	124	---	---	---	---	PASS
DPCD	25911	broad.mit.edu	37	10	103360569	103360569	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:103360569C>T	uc001ktn.2	+	3	225	c.220C>T	c.(220-222)CTA>TTA	p.L74L	hsa-mir-3158-1|MI0014186_5'Flank	NM_015448	NP_056263	Q9BVM2	DPCD_HUMAN	DPCD protein	74							protein binding			skin(1)	1						CCCAGCGCCCCTAGGAGCAGG	0.567													9	29	---	---	---	---	PASS
GBF1	8729	broad.mit.edu	37	10	104141932	104141932	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:104141932C>T	uc001kux.1	+	40	5659	c.5419C>T	c.(5419-5421)CCA>TCA	p.P1807S	GBF1_uc001kuy.1_Missense_Mutation_p.P1803S|GBF1_uc001kuz.1_Missense_Mutation_p.P1804S	NM_004193	NP_004184	Q92538	GBF1_HUMAN	golgi-specific brefeldin A resistant guanine	1807	Pro-rich.				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)		GGCTCAGCCCCCACTGATCCT	0.692													15	21	---	---	---	---	PASS
INA	9118	broad.mit.edu	37	10	105046812	105046812	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:105046812G>A	uc001kws.2	+	2	1135	c.1086G>A	c.(1084-1086)GAG>GAA	p.E362E		NM_032727	NP_116116	Q16352	AINX_HUMAN	internexin neuronal intermediate filament	362	Coil 2.|Rod.				cell differentiation|nervous system development	neurofilament	structural constituent of cytoskeleton			ovary(1)|breast(1)	2				Epithelial(162;3.45e-09)|all cancers(201;9.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.198)		GGCAGCTGGAGAATGATCTGA	0.418													13	18	---	---	---	---	PASS
INA	9118	broad.mit.edu	37	10	105046855	105046855	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:105046855C>T	uc001kws.2	+	2	1178	c.1129C>T	c.(1129-1131)CGG>TGG	p.R377W		NM_032727	NP_116116	Q16352	AINX_HUMAN	internexin neuronal intermediate filament	377	Coil 2.|Rod.				cell differentiation|nervous system development	neurofilament	structural constituent of cytoskeleton			ovary(1)|breast(1)	2				Epithelial(162;3.45e-09)|all cancers(201;9.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.198)		ACGCCACCTTCGGGAATACCA	0.463													20	17	---	---	---	---	PASS
PDCD11	22984	broad.mit.edu	37	10	105176511	105176511	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:105176511C>T	uc001kwy.1	+							NM_014976	NP_055791	Q14690	RRP5_HUMAN	programmed cell death 11						mRNA processing|rRNA processing	nucleolus	RNA binding|transcription factor binding			ovary(2)|breast(2)|skin(2)|central_nervous_system(1)	7		Colorectal(252;0.0747)|Breast(234;0.128)		Epithelial(162;7.21e-09)|all cancers(201;1.17e-08)|BRCA - Breast invasive adenocarcinoma(275;0.208)		TAACCCTTCCCCTAGACAGGT	0.512											OREG0020494	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	13	59	---	---	---	---	PASS
SH3PXD2A	9644	broad.mit.edu	37	10	105361813	105361813	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:105361813G>A	uc001kxj.1	-	14	3218	c.3078C>T	c.(3076-3078)CCC>CCT	p.P1026P	SH3PXD2A_uc010qqr.1_Intron|SH3PXD2A_uc010qqs.1_Silent_p.P861P|SH3PXD2A_uc010qqt.1_Silent_p.P903P|SH3PXD2A_uc009xxn.1_Silent_p.P861P|SH3PXD2A_uc010qqu.1_Silent_p.P969P	NM_014631	NP_055446	Q5TCZ1	SPD2A_HUMAN	SH3 multiple domains 1	1054					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)		CAGGGGACACGGGTATGCTGT	0.632													22	56	---	---	---	---	PASS
C10orf79	80217	broad.mit.edu	37	10	105912413	105912413	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:105912413C>T	uc001kxw.2	-	28	3728	c.3612G>A	c.(3610-3612)TTG>TTA	p.L1204L	C10orf79_uc009xxq.2_Silent_p.L512L	NM_025145	NP_079421	Q8NDM7	WDR96_HUMAN	hypothetical protein LOC80217	1204	Potential.										0		Colorectal(252;0.178)		Epithelial(162;4.83e-10)|all cancers(201;2.26e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0194)		AAAGTCTTTTCAAATGTTCAT	0.318													4	50	---	---	---	---	PASS
C10orf79	80217	broad.mit.edu	37	10	105944865	105944865	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:105944865G>A	uc001kxw.2	-	16	2166	c.2050C>T	c.(2050-2052)CAT>TAT	p.H684Y	C10orf79_uc009xxq.2_5'UTR|C10orf79_uc001kxx.3_Missense_Mutation_p.H685Y	NM_025145	NP_079421	Q8NDM7	WDR96_HUMAN	hypothetical protein LOC80217	684	WD 9.										0		Colorectal(252;0.178)		Epithelial(162;4.83e-10)|all cancers(201;2.26e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0194)		TGAATCCCATGACCCTGGTGA	0.403													26	36	---	---	---	---	PASS
SORCS3	22986	broad.mit.edu	37	10	106737254	106737254	+	Intron	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:106737254G>T	uc001kyi.1	+							NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	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)		ATCAAAAGGTGAATAAATACT	0.423													10	25	---	---	---	---	PASS
SORCS3	22986	broad.mit.edu	37	10	106974253	106974253	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:106974253C>T	uc001kyi.1	+	18	2656	c.2429C>T	c.(2428-2430)ACC>ATC	p.T810I	SORCS3_uc010qqz.1_RNA	NM_014978	NP_055793	Q9UPU3	SORC3_HUMAN	VPS10 domain receptor protein SORCS 3 precursor	810	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)		GAGAAGTACACCGCCAAGGCC	0.537													11	46	---	---	---	---	PASS
SORCS1	114815	broad.mit.edu	37	10	108366968	108366968	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:108366968C>T	uc001kym.2	-	23	3129	c.3121G>A	c.(3121-3123)GAT>AAT	p.D1041N	SORCS1_uc001kyl.2_Missense_Mutation_p.D1041N|SORCS1_uc009xxs.2_Missense_Mutation_p.D1041N|SORCS1_uc001kyn.1_Missense_Mutation_p.D1041N|SORCS1_uc001kyo.2_Missense_Mutation_p.D1041N	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	1041	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		CCAGCTGGATCCTGATAGGGT	0.547													13	28	---	---	---	---	PASS
SORCS1	114815	broad.mit.edu	37	10	108437114	108437114	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:108437114G>A	uc001kym.2	-	13	1797	c.1789C>T	c.(1789-1791)CTG>TTG	p.L597L	SORCS1_uc001kyl.2_Silent_p.L597L|SORCS1_uc009xxs.2_Silent_p.L597L|SORCS1_uc001kyn.1_Silent_p.L597L|SORCS1_uc001kyo.2_Silent_p.L597L	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	SORCS receptor 1 isoform a	597	Lumenal (Potential).					integral to membrane	neuropeptide receptor activity|protein binding			breast(1)|central_nervous_system(1)	2		Breast(234;0.0256)|Colorectal(252;0.09)|Lung NSC(174;0.168)		Epithelial(162;1.66e-05)|all cancers(201;0.000689)		ATAGCAACCAGGACTCCACCT	0.463													19	27	---	---	---	---	PASS
SMC3	9126	broad.mit.edu	37	10	112337612	112337612	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:112337612C>T	uc001kze.2	+	6	416	c.290C>T	c.(289-291)TCA>TTA	p.S97L		NM_005445	NP_005436	Q9UQE7	SMC3_HUMAN	structural maintenance of chromosomes 3	97					cell division|DNA mediated transformation|DNA repair|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic spindle organization|negative regulation of DNA endoreduplication|signal transduction|sister chromatid cohesion	basement membrane|chromatin|chromosome, centromeric region|cytoplasm|meiotic cohesin complex|nuclear matrix|nucleoplasm|spindle pole	ATP binding|dynein binding|microtubule motor activity|protein heterodimerization activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(234;0.0848)|Lung NSC(174;0.238)		Epithelial(162;0.00206)|all cancers(201;0.0227)|BRCA - Breast invasive adenocarcinoma(275;0.127)		GAGGAAGTTTCACTTCGAAGA	0.294													5	33	---	---	---	---	PASS
TECTB	6975	broad.mit.edu	37	10	114043501	114043501	+	Silent	SNP	G	A	A	rs139784993	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:114043501G>A	uc001kzr.1	+	1	9	c.9G>A	c.(7-9)ACG>ACA	p.T3T		NM_058222	NP_478129	Q96PL2	TECTB_HUMAN	tectorin beta precursor	3						anchored to membrane|plasma membrane|proteinaceous extracellular matrix					0		Colorectal(252;0.198)		Epithelial(162;0.0143)|all cancers(201;0.0242)		CAATGGTGACGAAGGCCTTTG	0.507													4	20	---	---	---	---	PASS
NRAP	4892	broad.mit.edu	37	10	115375459	115375459	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:115375459G>A	uc001laj.2	-						NRAP_uc009xyb.2_Intron|NRAP_uc001lak.2_Intron|NRAP_uc001lal.3_Intron	NM_198060	NP_932326	Q86VF7	NRAP_HUMAN	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)		GTGCCCCTTGGGTCAGCCTCA	0.373													14	9	---	---	---	---	PASS
NRAP	4892	broad.mit.edu	37	10	115383302	115383302	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:115383302C>T	uc001laj.2	-	23	2607	c.2443G>A	c.(2443-2445)GAC>AAC	p.D815N	NRAP_uc009xyb.2_Intron|NRAP_uc001lak.2_Missense_Mutation_p.D780N|NRAP_uc001lal.3_Missense_Mutation_p.D815N	NM_198060	NP_932326	Q86VF7	NRAP_HUMAN	nebulin-related anchoring protein isoform S	815	Nebulin 20.					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)		CTAGCCAGGtccctcttggct	0.353													26	26	---	---	---	---	PASS
CASP7	840	broad.mit.edu	37	10	115457308	115457308	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:115457308A>G	uc001lan.2	+	2	230	c.56A>G	c.(55-57)GAA>GGA	p.E19G	CASP7_uc001lam.2_Missense_Mutation_p.E19G|CASP7_uc001lao.2_Missense_Mutation_p.E52G|CASP7_uc001lap.2_Missense_Mutation_p.E19G|CASP7_uc001laq.2_Missense_Mutation_p.E19G|CASP7_uc010qsa.1_Missense_Mutation_p.K94E	NM_033339	NP_203125	P55210	CASP7_HUMAN	caspase 7 isoform alpha	19					activation of caspase activity by cytochrome c|cellular component disassembly involved in apoptosis|induction of apoptosis by intracellular signals|proteolysis	cytosol|endoplasmic reticulum membrane|mitochondrial membrane|nucleoplasm	cysteine-type endopeptidase activity|protein binding			ovary(1)	1		Colorectal(252;0.0946)|Breast(234;0.188)		Epithelial(162;0.012)|all cancers(201;0.014)		TCAGCAAATGAAGATTCAGTG	0.507													39	74	---	---	---	---	PASS
C10orf81	79949	broad.mit.edu	37	10	115529619	115529619	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:115529619C>T	uc001lat.1	+	6	1056	c.494C>T	c.(493-495)GCT>GTT	p.A165V	C10orf81_uc001lar.1_Missense_Mutation_p.A171V|C10orf81_uc009xyc.1_Missense_Mutation_p.A83V|C10orf81_uc001las.1_Missense_Mutation_p.A83V|C10orf81_uc001lau.1_5'Flank	NM_024889	NP_079165	Q5SXH7	CJ081_HUMAN	hypothetical protein LOC79949	165										central_nervous_system(1)	1		Colorectal(252;0.175)		Epithelial(162;0.0181)|all cancers(201;0.0204)		ACATCAGAGGCTGTTGGCTCC	0.493													44	60	---	---	---	---	PASS
C10orf118	55088	broad.mit.edu	37	10	115885742	115885742	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:115885742G>A	uc001lbb.1	-	15	3168	c.2516C>T	c.(2515-2517)CCA>CTA	p.P839L	C10orf118_uc009xyd.1_Intron|C10orf118_uc001lbc.1_Missense_Mutation_p.P839L|C10orf118_uc009xye.1_RNA	NM_018017	NP_060487	Q7Z3E2	CJ118_HUMAN	CTCL tumor antigen L14-2	839										ovary(2)	2		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0161)|all cancers(201;0.0397)		ATTGTCAGCTGGATGGGATGT	0.383													15	25	---	---	---	---	PASS
TDRD1	56165	broad.mit.edu	37	10	115947891	115947891	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:115947891G>A	uc001lbg.1	+	2	454	c.301G>A	c.(301-303)GGA>AGA	p.G101R	TDRD1_uc001lbf.2_Missense_Mutation_p.G92R|TDRD1_uc001lbh.1_Missense_Mutation_p.G92R|TDRD1_uc001lbi.1_Missense_Mutation_p.G92R	NM_198795	NP_942090	Q9BXT4	TDRD1_HUMAN	tudor domain containing 1	101					DNA methylation involved in gamete generation|gene silencing by RNA|germ cell development|meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	pi-body	nucleic acid binding|protein binding|zinc ion binding				0		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0343)|all cancers(201;0.0754)		TGGCTCCAAAGGAGACAGGAA	0.413													34	37	---	---	---	---	PASS
TDRD1	56165	broad.mit.edu	37	10	115947893	115947893	+	Silent	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:115947893A>T	uc001lbg.1	+	2	456	c.303A>T	c.(301-303)GGA>GGT	p.G101G	TDRD1_uc001lbf.2_Silent_p.G92G|TDRD1_uc001lbh.1_Silent_p.G92G|TDRD1_uc001lbi.1_Silent_p.G92G	NM_198795	NP_942090	Q9BXT4	TDRD1_HUMAN	tudor domain containing 1	101					DNA methylation involved in gamete generation|gene silencing by RNA|germ cell development|meiosis|multicellular organismal development|piRNA metabolic process|spermatogenesis	pi-body	nucleic acid binding|protein binding|zinc ion binding				0		Colorectal(252;0.172)|Breast(234;0.188)		Epithelial(162;0.0343)|all cancers(201;0.0754)		GCTCCAAAGGAGACAGGAAAA	0.418													33	39	---	---	---	---	PASS
VWA2	340706	broad.mit.edu	37	10	116038536	116038536	+	Silent	SNP	C	T	T	rs145257901		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:116038536C>T	uc001lbl.1	+	8	1080	c.759C>T	c.(757-759)TTC>TTT	p.F253F	VWA2_uc001lbk.1_Silent_p.F253F|VWA2_uc009xyf.1_5'UTR	NM_198496	NP_940898	Q5GFL6	VWA2_HUMAN	von Willebrand factor A domain containing 2	253						extracellular region				ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5				Epithelial(162;0.036)|all cancers(201;0.0793)		TCCGGGAGTTCGCTGGCAATG	0.647													17	24	---	---	---	---	PASS
VWA2	340706	broad.mit.edu	37	10	116048690	116048690	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:116048690C>T	uc001lbl.1	+						VWA2_uc001lbk.1_Intron|VWA2_uc009xyf.1_Intron	NM_198496	NP_940898	Q5GFL6	VWA2_HUMAN	von Willebrand factor A domain containing 2							extracellular region				ovary(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5				Epithelial(162;0.036)|all cancers(201;0.0793)		TCTGCTTGCTCCTGCAGGGTG	0.607													17	35	---	---	---	---	PASS
ATRNL1	26033	broad.mit.edu	37	10	117061501	117061501	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:117061501C>T	uc001lcg.2	+	17	3152	c.2766C>T	c.(2764-2766)ATC>ATT	p.I922I	ATRNL1_uc010qsm.1_Silent_p.I97I|ATRNL1_uc010qsn.1_RNA	NM_207303	NP_997186	Q5VV63	ATRN1_HUMAN	attractin-like 1 precursor	922	PSI 4.|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)		ATGCCTATATCATCTCTTTTC	0.428													27	29	---	---	---	---	PASS
PNLIP	5406	broad.mit.edu	37	10	118306827	118306827	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:118306827G>A	uc001lcm.2	+	3	111	c.68G>A	c.(67-69)AGA>AAA	p.R23K		NM_000936	NP_000927	P16233	LIPP_HUMAN	pancreatic lipase precursor	23					lipid catabolic process|retinoid metabolic process|steroid metabolic process	extracellular region	retinyl-palmitate esterase activity|triglyceride lipase activity			ovary(1)|central_nervous_system(1)|skin(1)	3				all cancers(201;0.0131)	Bentiromide(DB00522)|Orlistat(DB01083)	TGCTACGAAAGACTCGGCTGC	0.428													13	49	---	---	---	---	PASS
PNLIP	5406	broad.mit.edu	37	10	118318691	118318691	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:118318691G>A	uc001lcm.2	+	10	999	c.956G>A	c.(955-957)GGA>GAA	p.G319E		NM_000936	NP_000927	P16233	LIPP_HUMAN	pancreatic lipase precursor	319					lipid catabolic process|retinoid metabolic process|steroid metabolic process	extracellular region	retinyl-palmitate esterase activity|triglyceride lipase activity			ovary(1)|central_nervous_system(1)|skin(1)	3				all cancers(201;0.0131)	Bentiromide(DB00522)|Orlistat(DB01083)	TGTCCAAGTGGAGGCTGCCCA	0.408													12	23	---	---	---	---	PASS
PDZD8	118987	broad.mit.edu	37	10	119044399	119044399	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:119044399G>A	uc001lde.1	-	5	2044	c.1845C>T	c.(1843-1845)CTC>CTT	p.L615L		NM_173791	NP_776152	Q8NEN9	PDZD8_HUMAN	PDZ domain containing 8	615	Pro-rich.				intracellular signal transduction		metal ion binding				0		Colorectal(252;0.19)		all cancers(201;0.0121)		GCTTTTCAACGAGAACATCTG	0.498													23	54	---	---	---	---	PASS
EIF3A	8661	broad.mit.edu	37	10	120830391	120830391	+	Intron	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:120830391A>G	uc001ldu.2	-						EIF3A_uc010qsu.1_Intron	NM_003750	NP_003741	Q14152	EIF3A_HUMAN	eukaryotic translation initiation factor 3,						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)		TAATAGCTCCAACATACCTGC	0.393													12	17	---	---	---	---	PASS
PRDX3	10935	broad.mit.edu	37	10	120933973	120933973	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:120933973G>A	uc001lec.2	-	3	344	c.301C>T	c.(301-303)CCT>TCT	p.P101S		NM_006793	NP_006784	P30048	PRDX3_HUMAN	peroxiredoxin 3 isoform a precursor	101	Thioredoxin.				cell redox homeostasis|hydrogen peroxide catabolic process|mitochondrion organization|myeloid cell differentiation|negative regulation of kinase activity|positive regulation of cell proliferation|positive regulation of NF-kappaB transcription factor activity|regulation of mitochondrial membrane potential|response to lipopolysaccharide	early endosome|mitochondrion	alkyl hydroperoxide reductase activity|caspase inhibitor activity|peroxidase activity|peroxiredoxin activity|protein C-terminus binding|protein kinase binding				0		Lung NSC(174;0.094)|all_lung(145;0.123)		all cancers(201;0.0245)		AAATCCAAAGGATAGAAGAAA	0.408													16	32	---	---	---	---	PASS
GRK5	2869	broad.mit.edu	37	10	121182680	121182680	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:121182680C>T	uc001led.2	+	5	575	c.342C>T	c.(340-342)TCC>TCT	p.S114S	GRK5_uc009xzh.2_Silent_p.S9S|GRK5_uc010qta.1_Silent_p.S9S	NM_005308	NP_005299	P34947	GRK5_HUMAN	G protein-coupled receptor kinase 5	114	N-terminal.|RGS.				G-protein signaling, coupled to cAMP nucleotide second messenger|regulation of G-protein coupled receptor protein signaling pathway|tachykinin receptor signaling pathway	cytoplasm|plasma membrane|soluble fraction	ATP binding|G-protein coupled receptor kinase activity|phospholipid binding|protein kinase C binding|signal transducer activity			lung(2)|stomach(1)	3		Lung NSC(174;0.0971)|all_lung(145;0.127)|Ovarian(717;0.249)		all cancers(201;0.0227)		TCTTCCAGTCCCCTGTTTTCA	0.582													33	150	---	---	---	---	PASS
DMBT1	1755	broad.mit.edu	37	10	124339165	124339165	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:124339165T>A	uc001lgk.1	+	10	857	c.751T>A	c.(751-753)TAC>AAC	p.Y251N	DMBT1_uc001lgl.1_Missense_Mutation_p.Y251N|DMBT1_uc001lgm.1_Missense_Mutation_p.Y251N|DMBT1_uc009xzz.1_Missense_Mutation_p.Y251N|DMBT1_uc010qtx.1_Intron|DMBT1_uc009yaa.1_Missense_Mutation_p.Y103N	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b	251	SRCR 2.				epithelial cell differentiation|induction of bacterial agglutination|innate immune response|interspecies interaction between organisms|protein transport|response to virus	extrinsic to membrane|phagocytic vesicle membrane|zymogen granule membrane	calcium-dependent protein binding|Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|pattern recognition receptor activity|scavenger receptor activity|zymogen binding			central_nervous_system(7)	7		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				GGAGGTCCTATACCGAGGCTC	0.597													94	179	---	---	---	---	PASS
DMBT1	1755	broad.mit.edu	37	10	124358283	124358283	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:124358283C>T	uc001lgk.1	+						DMBT1_uc001lgl.1_Intron|DMBT1_uc001lgm.1_Intron|DMBT1_uc009xzz.1_Intron|DMBT1_uc010qtx.1_Intron|DMBT1_uc009yab.1_Intron	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b						epithelial cell differentiation|induction of bacterial agglutination|innate immune response|interspecies interaction between organisms|protein transport|response to virus	extrinsic to membrane|phagocytic vesicle membrane|zymogen granule membrane	calcium-dependent protein binding|Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|pattern recognition receptor activity|scavenger receptor activity|zymogen binding			central_nervous_system(7)	7		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				CTTGTGTTCCCCTGTAGGATC	0.532													67	158	---	---	---	---	PASS
DMBT1	1755	broad.mit.edu	37	10	124359619	124359619	+	Intron	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:124359619C>A	uc001lgk.1	+						DMBT1_uc001lgl.1_Intron|DMBT1_uc001lgm.1_Intron|DMBT1_uc009xzz.1_Intron|DMBT1_uc010qtx.1_Intron|DMBT1_uc009yab.1_Intron	NM_007329	NP_015568	Q9UGM3	DMBT1_HUMAN	deleted in malignant brain tumors 1 isoform b						epithelial cell differentiation|induction of bacterial agglutination|innate immune response|interspecies interaction between organisms|protein transport|response to virus	extrinsic to membrane|phagocytic vesicle membrane|zymogen granule membrane	calcium-dependent protein binding|Gram-negative bacterial cell surface binding|Gram-positive bacterial cell surface binding|pattern recognition receptor activity|scavenger receptor activity|zymogen binding			central_nervous_system(7)	7		all_neural(114;0.0765)|Lung NSC(174;0.132)|all_lung(145;0.163)|Breast(234;0.238)				GGTGGGTCCCCAGTGTCCTTC	0.517													5	95	---	---	---	---	PASS
FAM24A	118670	broad.mit.edu	37	10	124671195	124671195	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:124671195C>G	uc001lgv.2	+	2	166	c.45C>G	c.(43-45)ATC>ATG	p.I15M		NM_001029888	NP_001025059	A6NFZ4	FA24A_HUMAN	family with sequence similarity 24, member A	15						extracellular region				ovary(2)	2		all_neural(114;0.169)|Glioma(114;0.222)		Colorectal(40;0.124)|COAD - Colon adenocarcinoma(40;0.141)		TGATCGGCATCGGAAGCAGCT	0.498													73	133	---	---	---	---	PASS
CPXM2	119587	broad.mit.edu	37	10	125516831	125516831	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:125516831G>A	uc001lhk.1	-	12	2140	c.1815C>T	c.(1813-1815)TTC>TTT	p.F605F	CPXM2_uc001lhj.2_RNA	NM_198148	NP_937791	Q8N436	CPXM2_HUMAN	carboxypeptidase X (M14 family), member 2	605					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)		TGGACAGTTCGAAGCAGTTTG	0.498													42	39	---	---	---	---	PASS
OAT	4942	broad.mit.edu	37	10	126097298	126097298	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:126097298G>A	uc001lhp.2	-						OAT_uc001lhq.2_Intron|OAT_uc001lhr.2_Intron	NM_000274	NP_000265	P04181	OAT_HUMAN	ornithine aminotransferase precursor						cellular amino acid biosynthetic process|visual perception	mitochondrial matrix	ornithine-oxo-acid transaminase activity|protein binding|pyridoxal phosphate binding				0		all_lung(145;0.0271)|Lung NSC(174;0.0436)|Colorectal(57;0.102)|all_neural(114;0.116)			L-Ornithine(DB00129)|Pyridoxal Phosphate(DB00114)	ACAAAAAAAGGAAATGTTTTA	0.279													8	30	---	---	---	---	PASS
CTBP2	1488	broad.mit.edu	37	10	126715951	126715951	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:126715951G>A	uc009yak.2	-						CTBP2_uc009yal.2_Intron|CTBP2_uc001lif.3_Intron|CTBP2_uc001lih.3_Intron|CTBP2_uc001lie.3_Silent_p.L126L	NM_001329	NP_001320	P56545	CTBP2_HUMAN	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)		GGTCCCGATAGAGGGGAGGCT	0.632													10	14	---	---	---	---	PASS
UROS	7390	broad.mit.edu	37	10	127503624	127503624	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:127503624C>T	uc001liw.3	-	3	356	c.223G>A	c.(223-225)GAG>AAG	p.E75K	UROS_uc001liv.3_5'UTR|UROS_uc010quh.1_RNA|UROS_uc001lix.3_Missense_Mutation_p.E75K|UROS_uc001liy.3_RNA|UROS_uc001liz.2_RNA	NM_000375	NP_000366	P10746	HEM4_HUMAN	uroporphyrinogen III synthase	75					heme biosynthetic process|uroporphyrinogen III biosynthetic process	cytosol|mitochondrion	uroporphyrinogen-III synthase activity				0		all_lung(145;0.00756)|Lung NSC(174;0.0116)|Colorectal(57;0.0855)|all_neural(114;0.0937)|Breast(234;0.203)				TTGTTTTGCTCCAAACATAAC	0.443													16	14	---	---	---	---	PASS
C10orf90	118611	broad.mit.edu	37	10	128114446	128114446	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:128114446C>T	uc001ljq.2	-	9	2208	c.2087G>A	c.(2086-2088)AGG>AAG	p.R696K	C10orf90_uc001ljp.2_Missense_Mutation_p.R552K|C10orf90_uc010qum.1_Missense_Mutation_p.R793K|C10orf90_uc001ljo.2_RNA	NM_001004298	NP_001004298	Q96M02	CJ090_HUMAN	hypothetical protein LOC118611	696										ovary(1)|skin(1)	2		all_epithelial(44;4.51e-05)|all_lung(145;0.0068)|Lung NSC(174;0.0105)|Colorectal(57;0.0848)|all_neural(114;0.0936)|Breast(234;0.203)		COAD - Colon adenocarcinoma(40;0.0442)|Colorectal(40;0.0479)		GACCGCATTCCTTTGAAGGAG	0.488													13	29	---	---	---	---	PASS
C10orf90	118611	broad.mit.edu	37	10	128193239	128193239	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:128193239G>A	uc001ljq.2	-	3	651	c.530C>T	c.(529-531)CCC>CTC	p.P177L	C10orf90_uc001ljp.2_Missense_Mutation_p.P130L|C10orf90_uc010qum.1_Missense_Mutation_p.P274L|C10orf90_uc009yao.2_Missense_Mutation_p.P274L|C10orf90_uc001ljs.1_Missense_Mutation_p.P130L	NM_001004298	NP_001004298	Q96M02	CJ090_HUMAN	hypothetical protein LOC118611	177										ovary(1)|skin(1)	2		all_epithelial(44;4.51e-05)|all_lung(145;0.0068)|Lung NSC(174;0.0105)|Colorectal(57;0.0848)|all_neural(114;0.0936)|Breast(234;0.203)		COAD - Colon adenocarcinoma(40;0.0442)|Colorectal(40;0.0479)		CAGAGCCGGGGGCGCCTGGAA	0.667											OREG0020616	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	11	34	---	---	---	---	PASS
FAM196A	642938	broad.mit.edu	37	10	128974270	128974270	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:128974270G>A	uc001lju.1	-	1	431	c.390C>T	c.(388-390)CTC>CTT	p.L130L	DOCK1_uc001ljt.2_Intron|DOCK1_uc010qun.1_Intron|FAM196A_uc010quo.1_Silent_p.L130L|FAM196A_uc001ljv.1_Silent_p.L130L|FAM196A_uc009yap.1_Silent_p.L130L	NM_001039762	NP_001034851	Q6ZSG2	F196A_HUMAN	hypothetical protein LOC642938	130										ovary(2)	2						CTGCAGCTGGGAGGCTTTTGA	0.552													14	28	---	---	---	---	PASS
PTPRE	5791	broad.mit.edu	37	10	129859939	129859939	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:129859939C>T	uc001lkb.2	+						PTPRE_uc009yat.2_Intron|PTPRE_uc010qup.1_Intron|PTPRE_uc009yau.2_Intron|PTPRE_uc001lkd.2_Intron|PTPRE_uc010quq.1_Intron	NM_006504	NP_006495	P23469	PTPRE_HUMAN	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)				GTTATTTTTTCTAGGGTTACA	0.234													4	20	---	---	---	---	PASS
MGMT	4255	broad.mit.edu	37	10	131506293	131506293	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:131506293C>T	uc001lkh.2	+	3	379	c.353C>T	c.(352-354)CCC>CTC	p.P118L		NM_002412	NP_002403	P16455	MGMT_HUMAN	O-6-methylguanine-DNA methyltransferase	87										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)		CTTCACCATCCCGTTTTCCAG	0.532								Direct_reversal_of_damage					24	39	---	---	---	---	PASS
EBF3	253738	broad.mit.edu	37	10	131757282	131757282	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:131757282G>A	uc001lki.1	-							NM_001005463	NP_001005463	Q9H4W6	COE3_HUMAN	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)		CTGCGCGAGGGACAAGCAGAG	0.642													4	10	---	---	---	---	PASS
TCERG1L	256536	broad.mit.edu	37	10	133107540	133107540	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:133107540G>T	uc001lkp.2	-	2	451	c.365C>A	c.(364-366)CCG>CAG	p.P122Q		NM_174937	NP_777597	Q5VWI1	TCRGL_HUMAN	transcription elongation regulator 1-like	122								p.P81Q(1)		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)		TCCTAGGGACGGAGAATGGCC	0.527													13	25	---	---	---	---	PASS
TCERG1L	256536	broad.mit.edu	37	10	133107541	133107541	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:133107541G>A	uc001lkp.2	-	2	450	c.364C>T	c.(364-366)CCG>TCG	p.P122S		NM_174937	NP_777597	Q5VWI1	TCRGL_HUMAN	transcription elongation regulator 1-like	122										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)		CCTAGGGACGGAGAATGGCCA	0.527													12	25	---	---	---	---	PASS
PPP2R2D	55844	broad.mit.edu	37	10	133769400	133769400	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:133769400C>T	uc001lks.2	+	7	1439	c.1196C>T	c.(1195-1197)CCC>CTC	p.P399L	PPP2R2D_uc001lkr.2_Missense_Mutation_p.P205L|PPP2R2D_uc001lkt.2_Missense_Mutation_p.P205L|PPP2R2D_uc009yay.2_Missense_Mutation_p.P267L	NM_018461	NP_060931	Q66LE6	2ABD_HUMAN	protein phosphatase 2, regulatory subunit B,	432	WD 7.				cell division|exit from mitosis|mitosis|signal transduction	cytoplasm|protein phosphatase type 2A complex	protein phosphatase type 2A regulator activity			skin(1)	1		all_cancers(35;2.16e-12)|all_epithelial(44;2.77e-09)|Lung NSC(174;0.00237)|all_lung(145;0.00354)|Colorectal(31;0.0124)|Breast(234;0.023)|all_neural(114;0.0299)|Melanoma(40;0.123)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;7.86e-05)|Epithelial(32;8.82e-05)|all cancers(32;0.000106)|BRCA - Breast invasive adenocarcinoma(275;0.21)		GCCTGGCACCCCGTGGACAAT	0.522													5	9	---	---	---	---	PASS
JAKMIP3	282973	broad.mit.edu	37	10	133930772	133930772	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:133930772G>A	uc001lkx.3	+	2	327	c.327G>A	c.(325-327)AAG>AAA	p.K109K		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)		TCAAGATCAAGGACAACGAGA	0.607													7	33	---	---	---	---	PASS
DPYSL4	10570	broad.mit.edu	37	10	134006186	134006186	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:134006186C>T	uc009ybb.2	+	3	307	c.153C>T	c.(151-153)GTC>GTT	p.V51V		NM_006426	NP_006417	O14531	DPYL4_HUMAN	dihydropyrimidinase-like 4	51					axon guidance|pyrimidine base catabolic process	cytosol	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in cyclic amides			central_nervous_system(2)	2		all_cancers(35;4.33e-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;7.21e-05)|Epithelial(32;8.01e-05)|all cancers(32;9.29e-05)|BRCA - Breast invasive adenocarcinoma(275;0.206)		ACCTCATCGTCCCTGGGGGCA	0.577													11	41	---	---	---	---	PASS
C10orf93	255352	broad.mit.edu	37	10	134743005	134743005	+	Silent	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:134743005G>T	uc001llt.1	-	9	1246	c.1170C>A	c.(1168-1170)CTC>CTA	p.L390L		NM_173572	NP_775843	Q5SR76	CJ093_HUMAN	hypothetical protein LOC255352	Error:Variant_position_missing_in_Q5SR76_after_alignment							binding			pancreas(1)	1		all_cancers(35;1.8e-07)|all_epithelial(44;6.22e-06)|Lung NSC(174;0.0108)|all_lung(145;0.0173)|all_neural(114;0.0726)|Colorectal(31;0.119)|Glioma(114;0.172)|Melanoma(40;0.175)		Epithelial(32;4.28e-05)|OV - Ovarian serous cystadenocarcinoma(35;4.31e-05)|all cancers(32;5.02e-05)		gaaaggtaaagagaaacgggc	0.129													4	21	---	---	---	---	PASS
KNDC1	85442	broad.mit.edu	37	10	135000137	135000137	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:135000137C>T	uc001llz.1	+	6	1286	c.1285C>T	c.(1285-1287)CCA>TCA	p.P429S	KNDC1_uc001lma.1_Missense_Mutation_p.P364S	NM_152643	NP_689856	Q76NI1	VKIND_HUMAN	kinase non-catalytic C-lobe domain (KIND)	429					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)		TGAGAGAATTCCAGAAGGAGC	0.662													4	22	---	---	---	---	PASS
TUBGCP2	10844	broad.mit.edu	37	10	135099073	135099073	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:135099073G>A	uc001lmg.1	-	12	2139	c.1782C>T	c.(1780-1782)ACC>ACT	p.T594T	TUBGCP2_uc001lmf.1_Silent_p.T187T|TUBGCP2_uc010qvc.1_Silent_p.T622T|TUBGCP2_uc009ybk.1_Intron|TUBGCP2_uc010qvd.1_Silent_p.T464T|TUBGCP2_uc001lmh.1_RNA	NM_006659	NP_006650	Q9BSJ2	GCP2_HUMAN	tubulin, gamma complex associated protein 2	594					G2/M transition of mitotic cell cycle|microtubule nucleation|protein complex assembly	centrosome|cytoplasmic microtubule|cytosol|spindle pole	protein binding				0		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;8.87e-06)|all cancers(32;8.98e-06)|Epithelial(32;1.15e-05)		TCTCCTGCTTGGTCTCGATGG	0.587													4	11	---	---	---	---	PASS
PAOX	196743	broad.mit.edu	37	10	135197503	135197503	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:135197503C>T	uc001lmv.2	+	4	988	c.908C>T	c.(907-909)CCC>CTC	p.P303L	PAOX_uc001lmw.2_Intron|PAOX_uc001lmx.2_Missense_Mutation_p.P303L|PAOX_uc001lmy.2_Intron|PAOX_uc001lmz.2_RNA|PAOX_uc001lna.2_RNA|PAOX_uc001lnb.2_Intron|PAOX_uc001lnc.2_Intron	NM_152911	NP_690875	Q6QHF9	PAOX_HUMAN	polyamine oxidase isoform 1	441					polyamine biosynthetic process|xenobiotic metabolic process	peroxisomal matrix	polyamine oxidase activity				0		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		all cancers(32;4.39e-07)|OV - Ovarian serous cystadenocarcinoma(35;1.21e-06)|Epithelial(32;1.94e-06)		TTTGACCCTCCCCTGCCGGCT	0.498													47	87	---	---	---	---	PASS
MTG1	92170	broad.mit.edu	37	10	135212030	135212030	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:135212030C>T	uc001lnd.2	+						MTG1_uc010qve.1_Intron	NM_138384	NP_612393	Q9BT17	MTG1_HUMAN	GTP_binding protein precursor							mitochondrion	GTP binding|protein binding			skin(1)	1		all_cancers(35;1.14e-09)|all_epithelial(44;5.79e-08)|Lung NSC(174;0.00263)|all_lung(145;0.0039)|all_neural(114;0.0299)|Melanoma(40;0.123)|Colorectal(31;0.172)|Glioma(114;0.203)		OV - Ovarian serous cystadenocarcinoma(35;1.21e-06)|all cancers(32;1.69e-06)|Epithelial(32;1.94e-06)		GTAGGCTTTTCGTCTGTGCTC	0.393													28	31	---	---	---	---	PASS
ATHL1	80162	broad.mit.edu	37	11	293670	293670	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:293670G>A	uc010qvu.1	+	10	1672	c.1557G>A	c.(1555-1557)AGG>AGA	p.R519R	ATHL1_uc001lor.3_Silent_p.R271R|ATHL1_uc001lou.3_Silent_p.R94R|ATHL1_uc001lov.3_5'Flank	NM_025092	NP_079368	Q32M88	ATHL1_HUMAN	ATH1, acid trehalase-like 1	519					carbohydrate metabolic process		hydrolase activity, acting on glycosyl bonds			liver(1)|central_nervous_system(1)|skin(1)	3		all_cancers(49;1.12e-06)|all_epithelial(84;0.000375)|Breast(177;0.00122)|Ovarian(85;0.0228)|Medulloblastoma(188;0.0321)|all_neural(188;0.0762)		all cancers(45;5.38e-28)|Epithelial(43;3.25e-27)|OV - Ovarian serous cystadenocarcinoma(40;1.11e-20)|BRCA - Breast invasive adenocarcinoma(625;3.56e-05)|Lung(200;0.0327)|LUSC - Lung squamous cell carcinoma(625;0.122)		ATGTTCGCAGGAAAAATCTGG	0.617													18	24	---	---	---	---	PASS
DEAF1	10522	broad.mit.edu	37	11	688419	688419	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:688419G>A	uc001lqq.1	-	3	1122	c.429C>T	c.(427-429)ACC>ACT	p.T143T	DEAF1_uc009ycf.1_5'Flank	NM_021008	NP_066288	O75398	DEAF1_HUMAN	deformed epidermal autoregulatory factor 1	143					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)		TCGCTTTTTCGGTGTTCAGGC	0.607													10	21	---	---	---	---	PASS
DEAF1	10522	broad.mit.edu	37	11	688420	688420	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:688420G>A	uc001lqq.1	-	3	1121	c.428C>T	c.(427-429)ACC>ATC	p.T143I	DEAF1_uc009ycf.1_5'Flank	NM_021008	NP_066288	O75398	DEAF1_HUMAN	deformed epidermal autoregulatory factor 1	143					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)		CGCTTTTTCGGTGTTCAGGCT	0.602													10	21	---	---	---	---	PASS
PDDC1	347862	broad.mit.edu	37	11	772466	772466	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:772466C>A	uc001lrc.2	-	5	436	c.411G>T	c.(409-411)GAG>GAT	p.E137D	PDDC1_uc010qwm.1_Missense_Mutation_p.E87D|PDDC1_uc001lrd.2_Missense_Mutation_p.E137D|PDDC1_uc001lrf.1_Missense_Mutation_p.E101D|PDDC1_uc001lrg.1_RNA|PDDC1_uc009ycg.2_Missense_Mutation_p.E87D|PDDC1_uc010qwn.1_RNA|PDDC1_uc010qwo.1_RNA|PDDC1_uc010qwp.1_Missense_Mutation_p.E101D|PDDC1_uc010qwq.1_Missense_Mutation_p.E51D|PDDC1_uc010qwr.1_Missense_Mutation_p.E137D|PDDC1_uc010qws.1_Missense_Mutation_p.E87D	NM_182612	NP_872418	Q8NB37	PDDC1_HUMAN	Parkinson disease 7 domain containing 1	137						extracellular region					0		all_cancers(49;1.13e-08)|all_epithelial(84;2.95e-05)|Breast(177;0.000286)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.159)|all_lung(207;0.198)		all cancers(45;3.66e-26)|Epithelial(43;2.43e-25)|OV - Ovarian serous cystadenocarcinoma(40;1.33e-19)|BRCA - Breast invasive adenocarcinoma(625;4.29e-05)|Lung(200;0.0582)|LUSC - Lung squamous cell carcinoma(625;0.0703)		AGGATCTGTCCTCGTTGGTGG	0.662													5	74	---	---	---	---	PASS
MUC6	4588	broad.mit.edu	37	11	1025323	1025323	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:1025323C>T	uc001lsw.2	-	23	2895	c.2844G>A	c.(2842-2844)GGG>GGA	p.G948G		NM_005961	NP_005952	Q6W4X9	MUC6_HUMAN	mucin 6, gastric	948	VWFD 3.				maintenance of gastrointestinal epithelium	extracellular region	extracellular matrix structural constituent			ovary(1)	1		all_cancers(49;3.3e-08)|all_epithelial(84;5.08e-05)|Breast(177;0.000307)|Ovarian(85;0.000953)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		all cancers(45;1.24e-24)|BRCA - Breast invasive adenocarcinoma(625;0.00031)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)		GGGGCTCCTCCCCGGTGACCG	0.662													7	35	---	---	---	---	PASS
MUC5B	727897	broad.mit.edu	37	11	1262555	1262555	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:1262555C>T	uc009ycr.1	+	47	6650	c.6524C>T	c.(6523-6525)TCG>TTG	p.S2175L	MUC5B_uc001ltb.2_Missense_Mutation_p.S1485L	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	1482	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)		GCCCTCACCTCGCAGACTGGG	0.662													4	6	---	---	---	---	PASS
MUC5B	727897	broad.mit.edu	37	11	1267841	1267841	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:1267841C>G	uc009ycr.1	+	49	11606	c.11480C>G	c.(11479-11481)TCC>TGC	p.S3827C	MUC5B_uc001ltb.2_Missense_Mutation_p.S3247C	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	3244	7 X Cys-rich subdomain repeats.|Thr-rich.|17 X approximate tandem repeats, Ser/Thr- rich.			Missing (in Ref. 6; AAB61398).	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)		CCCTCTTCCTCCCTGGGCACC	0.632													27	87	---	---	---	---	PASS
MUC5B	727897	broad.mit.edu	37	11	1271670	1271670	+	Silent	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:1271670C>A	uc009ycr.1	+	51	15105	c.14979C>A	c.(14977-14979)ACC>ACA	p.T4993T	MUC5B_uc001ltb.2_Silent_p.T4523T	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	4520	23 X approximate tandem repeats, Ser/Thr- rich.|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)		CCACAGCTACCAGCTTTACAG	0.627													28	39	---	---	---	---	PASS
MUC5B	727897	broad.mit.edu	37	11	1272395	1272395	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:1272395G>A	uc009ycr.1	+						MUC5B_uc001ltb.2_Nonsense_Mutation_p.W4765*	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	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)		TGGACCACGTGGACCGTCCCA	0.587													24	95	---	---	---	---	PASS
MUC5B	727897	broad.mit.edu	37	11	1273754	1273754	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:1273754G>T	uc009ycr.1	+	53	16137	c.16011G>T	c.(16009-16011)CAG>CAT	p.Q5337H	MUC5B_uc001ltb.2_Missense_Mutation_p.Q5018H	NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	SubName: Full=Mucin 5AC, oligomeric mucus/gel-forming;	5015					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)		CTCTCCGGCAGGTGGGCCCCG	0.716													5	10	---	---	---	---	PASS
MUC5B	727897	broad.mit.edu	37	11	1283573	1283573	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:1283573G>A	uc009ycr.1	+							NM_017511	NP_059981	Q9HC84	MUC5B_HUMAN	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)		CAGGCAGGGTGGGGGACAAGG	0.692													4	5	---	---	---	---	PASS
MOB2	81532	broad.mit.edu	37	11	1492537	1492537	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:1492537G>A	uc010qwz.1	-	4	668	c.478C>T	c.(478-480)CCC>TCC	p.P160S	MOB2_uc001lto.1_Missense_Mutation_p.P44S|MOB2_uc001ltp.1_5'UTR|MOB2_uc001ltq.1_Missense_Mutation_p.P123S|MOB2_uc010qwy.1_Missense_Mutation_p.P44S	NM_053005	NP_443731	Q70IA6	MOB2_HUMAN	HCCA2 protein	129						nucleus|perinuclear region of cytoplasm	metal ion binding				0						TATTTTGTGGGGAACACGTCC	0.592													8	19	---	---	---	---	PASS
KRTAP5-1	387264	broad.mit.edu	37	11	1606160	1606160	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:1606160C>T	uc001ltu.1	-	1	354	c.320G>A	c.(319-321)GGG>GAG	p.G107E	LOC338651_uc009ycx.1_Intron|LOC338651_uc001ltt.1_Intron	NM_001005922	NP_001005922	Q6L8H4	KRA51_HUMAN	keratin associated protein 5-1	107	8 X 4 AA repeats of C-C-X-P.					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;0.000614)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		GCCACAGCCCCCCTTGGAGCC	0.672													4	21	---	---	---	---	PASS
KRTAP5-1	387264	broad.mit.edu	37	11	1606161	1606161	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:1606161C>T	uc001ltu.1	-	1	353	c.319G>A	c.(319-321)GGG>AGG	p.G107R	LOC338651_uc009ycx.1_Intron|LOC338651_uc001ltt.1_Intron	NM_001005922	NP_001005922	Q6L8H4	KRA51_HUMAN	keratin associated protein 5-1	107	8 X 4 AA repeats of C-C-X-P.					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;0.000614)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		CCACAGCCCCCCTTGGAGCCC	0.672													4	21	---	---	---	---	PASS
KRTAP5-5	439915	broad.mit.edu	37	11	1651422	1651422	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:1651422G>A	uc001lty.2	+	1	390	c.352G>A	c.(352-354)GGC>AGC	p.G118S		NM_001001480	NP_001001480	Q701N2	KRA55_HUMAN	keratin associated protein 5-5	118	8 X 4 AA repeats of C-C-X-P.			Missing (in Ref. 1; BAD20201 and 2; CAF31639).		keratin filament				lung(1)	1		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;0.000614)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		GTCCAAGGGGGGCTGTGGCTC	0.701													7	19	---	---	---	---	PASS
KRTAP5-5	439915	broad.mit.edu	37	11	1651541	1651541	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:1651541C>T	uc001lty.2	+	1	509	c.471C>T	c.(469-471)TCC>TCT	p.S157S		NM_001001480	NP_001001480	Q701N2	KRA55_HUMAN	keratin associated protein 5-5	157	8 X 4 AA repeats of C-C-X-P.			S -> C (in Ref. 1; BAD20201 and 2; CAF31639).		keratin filament				lung(1)	1		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;0.000614)|Lung(200;0.0681)|LUSC - Lung squamous cell carcinoma(625;0.082)		GCTCCCAGTCCAGCTGCTGCA	0.652													6	19	---	---	---	---	PASS
TNNT3	7140	broad.mit.edu	37	11	1956053	1956053	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:1956053C>T	uc001luu.3	+						TNNT3_uc001lun.2_Intron|TNNT3_uc001luw.3_Intron|TNNT3_uc001luo.3_Intron|TNNT3_uc001lup.3_Intron|TNNT3_uc001luq.3_Intron|TNNT3_uc001lur.2_Intron|TNNT3_uc010qxf.1_Intron|TNNT3_uc010qxg.1_Intron	NM_006757	NP_006748	P45378	TNNT3_HUMAN	troponin T3, skeletal, fast isoform 1						muscle filament sliding|regulation of ATPase activity|regulation of striated muscle contraction|skeletal muscle contraction	cytosol|troponin complex	calcium-dependent protein binding|tropomyosin binding|troponin C binding|troponin I binding			ovary(1)	1		all_epithelial(84;0.000138)|Breast(177;0.000962)|Ovarian(85;0.0014)|Medulloblastoma(188;0.0109)|all_neural(188;0.0299)|Lung NSC(207;0.229)		BRCA - Breast invasive adenocarcinoma(625;0.00253)|Lung(200;0.0333)|LUSC - Lung squamous cell carcinoma(625;0.0826)		ACTTCCTCTGCCCCAGGGACA	0.597													28	47	---	---	---	---	PASS
CD81	975	broad.mit.edu	37	11	2417851	2417851	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:2417851C>T	uc001lwf.1	+						CD81_uc001lwg.1_Intron|CD81_uc001lwh.1_RNA	NM_004356	NP_004347	P60033	CD81_HUMAN	CD81 antigen						activation of MAPK activity|cell proliferation|phosphatidylinositol biosynthetic process|positive regulation of 1-phosphatidylinositol 4-kinase activity|positive regulation of cell proliferation|positive regulation of peptidyl-tyrosine phosphorylation|protein localization|regulation of immune response|virion attachment, binding of host cell surface receptor	integral to plasma membrane	protein binding				0		all_epithelial(84;0.000161)|Breast(177;0.000962)|Medulloblastoma(188;0.00106)|Ovarian(85;0.0014)|all_neural(188;0.0137)|Lung NSC(207;0.209)		BRCA - Breast invasive adenocarcinoma(625;0.000338)|LUSC - Lung squamous cell carcinoma(625;0.191)		CCTGGCCACCCCTGCAGGAGG	0.622													9	41	---	---	---	---	PASS
TRPM5	29850	broad.mit.edu	37	11	2434714	2434714	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:2434714G>A	uc001lwm.3	-	13	2004	c.1995C>T	c.(1993-1995)ATC>ATT	p.I665I	TRPM5_uc010qxl.1_Silent_p.I665I|TRPM5_uc009ydn.2_Silent_p.I667I	NM_014555	NP_055370	Q9NZQ8	TRPM5_HUMAN	transient receptor potential cation channel,	665	Helical; (Potential).					integral to membrane|plasma membrane	receptor activity|voltage-gated ion channel activity			ovary(1)|breast(1)|central_nervous_system(1)|skin(1)	4		Medulloblastoma(188;0.0049)|Breast(177;0.00586)|all_epithelial(84;0.0075)|Ovarian(85;0.0256)|all_neural(188;0.0311)		BRCA - Breast invasive adenocarcinoma(625;0.00147)|LUSC - Lung squamous cell carcinoma(625;0.191)		ACCTGAAGGTGATGAGGTTGG	0.682													4	7	---	---	---	---	PASS
STIM1	6786	broad.mit.edu	37	11	4091353	4091353	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:4091353C>T	uc001lyv.2	+	6	1279	c.711C>T	c.(709-711)TCC>TCT	p.S237S	STIM1_uc009yef.2_Silent_p.S237S|STIM1_uc009yeg.2_Silent_p.S64S	NM_003156	NP_003147	Q13586	STIM1_HUMAN	stromal interaction molecule 1 precursor	237	Cytoplasmic (Potential).				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)		ACCGTTACTCCAAGGAGCACA	0.522													22	42	---	---	---	---	PASS
OR51S1	119692	broad.mit.edu	37	11	4869963	4869963	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:4869963C>T	uc010qyo.1	-	1	476	c.476G>A	c.(475-477)CGA>CAA	p.R159Q		NM_001004758	NP_001004758	Q8NGJ8	O51S1_HUMAN	olfactory receptor, family 51, subfamily S,	159	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|upper_aerodigestive_tract(1)|ovary(1)	4		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;5.06e-12)|BRCA - Breast invasive adenocarcinoma(625;0.00438)|LUSC - Lung squamous cell carcinoma(625;0.19)		ACCCAGGCATCGAAAAGAAAT	0.542													33	45	---	---	---	---	PASS
MMP26	56547	broad.mit.edu	37	11	5012670	5012670	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:5012670G>A	uc001lzv.2	+	4	557	c.539G>A	c.(538-540)GGA>GAA	p.G180E		NM_021801	NP_068573	Q9NRE1	MMP26_HUMAN	matrix metalloproteinase 26 preproprotein	180					collagen catabolic process|proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0		Medulloblastoma(188;0.0025)|Breast(177;0.0204)|all_neural(188;0.0227)		Epithelial(150;1.33e-11)|BRCA - Breast invasive adenocarcinoma(625;0.0287)|LUSC - Lung squamous cell carcinoma(625;0.191)		CCAAATTCTGGAAATCCTGGA	0.473													27	127	---	---	---	---	PASS
OR52E2	119678	broad.mit.edu	37	11	5079909	5079909	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:5079909C>T	uc010qyw.1	-	1	949	c.949G>A	c.(949-951)GAA>AAA	p.E317K		NM_001005164	NP_001005164	Q8NGJ4	O52E2_HUMAN	olfactory receptor, family 52, subfamily E,	317	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.0061)|all_neural(188;0.0479)|Breast(177;0.086)		Epithelial(150;1.03e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)|LUSC - Lung squamous cell carcinoma(625;0.191)		AGGTACTCTTCCTTTTCCATT	0.338													19	31	---	---	---	---	PASS
HBD	3045	broad.mit.edu	37	11	5254288	5254288	+	Missense_Mutation	SNP	C	T	T	rs34536353		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:5254288C>T	uc001maf.1	-	3	545	c.350G>A	c.(349-351)CGC>CAC	p.R117H		NM_000519	NP_000510	P02042	HBD_HUMAN	delta globin	117					blood coagulation	hemoglobin complex	heme binding|oxygen binding|oxygen transporter activity			ovary(1)	1		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;5.69e-10)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GCCAAAGTTGCGGGCCAGCAC	0.512													20	36	---	---	---	---	PASS
OR51B4	79339	broad.mit.edu	37	11	5322575	5322575	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:5322575G>A	uc010qza.1	-	1	602	c.602C>T	c.(601-603)TCT>TTT	p.S201F	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron	NM_033179	NP_149419	Q9Y5P0	O51B4_HUMAN	olfactory receptor, family 51, subfamily B,	201	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			pancreas(1)|skin(1)	2		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.76e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GACAGTCAAAGAAGTCTGAAT	0.393													11	34	---	---	---	---	PASS
OR51B2	79345	broad.mit.edu	37	11	5345101	5345101	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:5345101C>T	uc001mao.1	-	1	482	c.427G>A	c.(427-429)GGA>AGA	p.G143R	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron	NM_033180	NP_149420	Q9Y5P1	O51B2_HUMAN	olfactory receptor, family 51, subfamily B,	143	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;2.9e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ACTCCCACTCCTAACGCTATG	0.408													37	42	---	---	---	---	PASS
OR51B6	390058	broad.mit.edu	37	11	5373580	5373580	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:5373580C>T	uc010qzb.1	+	1	843	c.843C>T	c.(841-843)TTC>TTT	p.F281F	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,	281	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)		ACTTCCTTTTCCCACCTTTTA	0.383													7	44	---	---	---	---	PASS
OR51M1	390059	broad.mit.edu	37	11	5410988	5410988	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:5410988C>T	uc010qzc.1	+	1	360	c.360C>T	c.(358-360)TCC>TCT	p.S120S	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001004756	NP_001004756	B2RNI9	B2RNI9_HUMAN	olfactory receptor, family 51, subfamily M,	120						integral to membrane	olfactory receptor activity				0		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;1.98e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ACTCTTTTTCCTTCATGGAGT	0.502													26	124	---	---	---	---	PASS
OR52D1	390066	broad.mit.edu	37	11	5509997	5509997	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:5509997C>T	uc010qzg.1	+	1	61	c.61C>T	c.(61-63)CCA>TCA	p.P21S	HBG2_uc001mak.1_Intron|HBE1_uc001mam.1_Intron|OR51B5_uc001maq.1_Intron	NM_001005163	NP_001005163	Q9H346	O52D1_HUMAN	olfactory receptor, family 52, subfamily D,	21	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0572)|Breast(177;0.0675)		Epithelial(150;3.46e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		AACAGGGATCCCAGGGCTGGA	0.483													8	36	---	---	---	---	PASS
UBQLN3	50613	broad.mit.edu	37	11	5530073	5530073	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:5530073C>A	uc001may.1	-	2	802	c.716G>T	c.(715-717)CGG>CTG	p.R239L	HBG2_uc001mak.1_Intron	NM_017481	NP_059509	Q9H347	UBQL3_HUMAN	ubiquilin 3	239										ovary(3)	3		Medulloblastoma(188;0.00225)|Breast(177;0.0155)|all_neural(188;0.0212)		Epithelial(150;1.74e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		ACTGAGCACCCGGTCCTGGCT	0.483													5	59	---	---	---	---	PASS
OR52N4	390072	broad.mit.edu	37	11	5776770	5776770	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:5776770G>A	uc001mbu.2	+	1	848	c.800G>A	c.(799-801)GGG>GAG	p.G267E	TRIM5_uc001mbq.1_Intron|TRIM22_uc009yet.1_Intron	NM_001005175	NP_001005175	Q8NGI2	O52N4_HUMAN	olfactory receptor, family 52, subfamily N,	267	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;1.87e-10)|LUSC - Lung squamous cell carcinoma(625;0.114)|BRCA - Breast invasive adenocarcinoma(625;0.135)|Lung(200;0.197)		CACCGCTTTGGGGAACACATA	0.463													20	73	---	---	---	---	PASS
OR52E6	390078	broad.mit.edu	37	11	5863044	5863044	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:5863044C>T	uc010qzq.1	-	1	84	c.84G>A	c.(82-84)TGG>TGA	p.W28*	TRIM5_uc001mbq.1_Intron	NM_001005167	NP_001005167	Q96RD3	O52E6_HUMAN	olfactory receptor, family 52, subfamily E,	28	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1		Medulloblastoma(188;0.0075)|all_neural(188;0.0577)|Breast(177;0.086)		Epithelial(150;2.55e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GGAATCCAATCCAGATGTGCA	0.443													39	72	---	---	---	---	PASS
OR56A3	390083	broad.mit.edu	37	11	5968751	5968751	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:5968751C>T	uc010qzt.1	+	1	175	c.175C>T	c.(175-177)CTG>TTG	p.L59L		NM_001003443	NP_001003443	Q8NH54	O56A3_HUMAN	olfactory receptor, family 56, subfamily A,	59	Helical; Name=2; (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)		GGAGGCCTCTCTGCACCAGCC	0.612													27	26	---	---	---	---	PASS
OR56A1	120796	broad.mit.edu	37	11	6048179	6048179	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:6048179G>A	uc010qzw.1	-	1	756	c.756C>T	c.(754-756)TTC>TTT	p.F252F		NM_001001917	NP_001001917	Q8NGH5	O56A1_HUMAN	olfactory receptor, family 56, subfamily A,	252	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)	3		Medulloblastoma(188;0.00776)|all_neural(188;0.0652)|Breast(177;0.114)		Epithelial(150;7.01e-09)|BRCA - Breast invasive adenocarcinoma(625;0.135)		GAATGAGGATGAAGTGGGAGC	0.512													17	22	---	---	---	---	PASS
HPX	3263	broad.mit.edu	37	11	6452588	6452588	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:6452588G>A	uc001mdg.2	-	10	1303	c.1242C>T	c.(1240-1242)GGC>GGT	p.G414G	HPX_uc001mdf.2_Silent_p.G160G|HPX_uc009yfc.2_RNA	NM_000613	NP_000604	P02790	HEMO_HUMAN	hemopexin precursor	414					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)		ATGAGTTAGGGCCAAGGGACT	0.552													18	30	---	---	---	---	PASS
TRIM3	10612	broad.mit.edu	37	11	6477540	6477540	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:6477540G>A	uc001mdh.2	-	7	1803	c.1416C>T	c.(1414-1416)CTC>CTT	p.L472L	TRIM3_uc001mdi.2_Silent_p.L472L|TRIM3_uc010raj.1_Silent_p.L353L|TRIM3_uc009yfd.2_Silent_p.L472L|TRIM3_uc010rak.1_Silent_p.L472L|TRIM3_uc001mdj.2_Silent_p.L353L	NM_006458	NP_006449	O75382	TRIM3_HUMAN	tripartite motif-containing 3	472					nervous system development|protein transport	early endosome	protein C-terminus binding|zinc ion binding			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)		CACGGAAGACGAGCTCATCCT	0.607													7	41	---	---	---	---	PASS
DCHS1	8642	broad.mit.edu	37	11	6649925	6649925	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:6649925G>A	uc001mem.1	-	13	5708	c.5298C>T	c.(5296-5298)CCC>CCT	p.P1766P		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	1766	Cadherin 17.|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)		TAAGGGTCTGGGGGTCCTGGC	0.572													16	23	---	---	---	---	PASS
DCHS1	8642	broad.mit.edu	37	11	6651036	6651036	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:6651036G>A	uc001mem.1	-	11	5312	c.4902C>T	c.(4900-4902)GTC>GTT	p.V1634V		NM_003737	NP_003728	Q96JQ0	PCD16_HUMAN	dachsous 1 precursor	1634	Cadherin 15.|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)		TGACGGTCAGGACCTGCGTGG	0.642													10	11	---	---	---	---	PASS
OR10A2	341276	broad.mit.edu	37	11	6891165	6891165	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:6891165C>T	uc001meu.1	+	1	180	c.180C>T	c.(178-180)TTC>TTT	p.F60F		NM_001004460	NP_001004460	Q9H208	O10A2_HUMAN	olfactory receptor, family 10, subfamily A,	60	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.89e-08)|BRCA - Breast invasive adenocarcinoma(625;0.13)		AGATTGGCTTCAACCTAGTCA	0.493													16	63	---	---	---	---	PASS
NLRP14	338323	broad.mit.edu	37	11	7064414	7064414	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:7064414G>A	uc001mfb.1	+	4	1480	c.1157G>A	c.(1156-1158)GGT>GAT	p.G386D		NM_176822	NP_789792	Q86W24	NAL14_HUMAN	NLR family, pyrin domain containing 14	386	NACHT.				cell differentiation|multicellular organismal development|spermatogenesis		ATP binding			ovary(3)|breast(2)|pancreas(1)|lung(1)|skin(1)	8				Epithelial(150;4.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0871)		ATGGAGAAGGGTGGTGATGTC	0.478													16	67	---	---	---	---	PASS
NLRP14	338323	broad.mit.edu	37	11	7092546	7092546	+	3'UTR	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:7092546G>A	uc001mfb.1	+	12						NM_176822	NP_789792	Q86W24	NAL14_HUMAN	NLR family, pyrin domain containing 14						cell differentiation|multicellular organismal development|spermatogenesis		ATP binding			ovary(3)|breast(2)|pancreas(1)|lung(1)|skin(1)	8				Epithelial(150;4.62e-08)|BRCA - Breast invasive adenocarcinoma(625;0.0871)		CTGATTTGAAGAAACTGACAT	0.328													9	14	---	---	---	---	PASS
NLRP10	338322	broad.mit.edu	37	11	7984936	7984936	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:7984936G>A	uc001mfv.1	-	1	124	c.107C>T	c.(106-108)ACC>ATC	p.T36I		NM_176821	NP_789791	Q86W26	NAL10_HUMAN	NLR family, pyrin domain containing 10	36	DAPIN.						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)		CTCAGACAGGGTCATATCCCG	0.537													17	24	---	---	---	---	PASS
LYVE1	10894	broad.mit.edu	37	11	10585747	10585747	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:10585747C>T	uc001miv.2	-						uc001miu.2_Intron|LYVE1_uc010rca.1_Intron	NM_006691	NP_006682	Q9Y5Y7	LYVE1_HUMAN	lymphatic vessel endothelial hyaluronan receptor						anatomical structure morphogenesis|cell-matrix adhesion|cellular component movement|response to wounding|transport	integral to plasma membrane|membrane fraction				central_nervous_system(1)|skin(1)	2				all cancers(16;7.22e-08)|Epithelial(150;1.03e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0609)		AGCTTTTTCTCACCTGCAAGT	0.443													8	33	---	---	---	---	PASS
LYVE1	10894	broad.mit.edu	37	11	10585793	10585793	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:10585793C>T	uc001miv.2	-	2	500	c.214G>A	c.(214-216)GAC>AAC	p.D72N	uc001miu.2_Intron|LYVE1_uc010rca.1_Intron	NM_006691	NP_006682	Q9Y5Y7	LYVE1_HUMAN	lymphatic vessel endothelial hyaluronan receptor	72	Link.|Extracellular (Potential).				anatomical structure morphogenesis|cell-matrix adhesion|cellular component movement|response to wounding|transport	integral to plasma membrane|membrane fraction				central_nervous_system(1)|skin(1)	2				all cancers(16;7.22e-08)|Epithelial(150;1.03e-07)|BRCA - Breast invasive adenocarcinoma(625;0.0609)		TCAACTTGGTCCTTGCCGGCC	0.478													10	21	---	---	---	---	PASS
COPB1	1315	broad.mit.edu	37	11	14480174	14480174	+	Silent	SNP	A	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:14480174A>C	uc001mli.2	-	21	3013	c.2706T>G	c.(2704-2706)GGT>GGG	p.G902G	COPB1_uc001mlg.2_Silent_p.G902G|COPB1_uc001mlh.2_Silent_p.G902G	NM_016451	NP_057535	P53618	COPB_HUMAN	coatomer protein complex, subunit beta 1	902					COPI coating of Golgi vesicle|interspecies interaction between organisms|intra-Golgi vesicle-mediated transport|intracellular protein transport|retrograde vesicle-mediated transport, Golgi to ER	COPI vesicle coat|cytosol|ER-Golgi intermediate compartment|plasma membrane	protein binding|structural molecule activity			ovary(1)|central_nervous_system(1)	2						GTGCATCTTCACCAAATATGG	0.428													23	58	---	---	---	---	PASS
ABCC8	6833	broad.mit.edu	37	11	17485036	17485036	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:17485036C>T	uc001mnc.2	-	4	654	c.528G>A	c.(526-528)GTG>GTA	p.V176V	ABCC8_uc010rcy.1_Silent_p.V176V	NM_000352	NP_000343	Q09428	ABCC8_HUMAN	ATP-binding cassette, sub-family C, member 8	176	Helical; Name=5; (By similarity).				carbohydrate metabolic process|energy reserve metabolic process	integral to membrane	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium ion transmembrane transporter activity|sulfonylurea receptor activity			ovary(1)	1				READ - Rectum adenocarcinoma(2;0.0325)|Colorectal(2;0.1)	Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)|Gliclazide(DB01120)|Mitiglinide(DB01252)|Nateglinide(DB00731)|Repaglinide(DB00912)	CATAGAGGATCACCAGCAGCC	0.597													5	8	---	---	---	---	PASS
SAA4	6291	broad.mit.edu	37	11	18253220	18253220	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:18253220C>T	uc001mny.2	-							NM_006512	NP_006503	P35542	SAA4_HUMAN	serum amyloid A4, constitutive precursor						acute-phase response	high-density lipoprotein particle					0						GGCTGCAACCCAAAGAAAGGA	0.478													9	30	---	---	---	---	PASS
GTF2H1	2965	broad.mit.edu	37	11	18369367	18369367	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:18369367C>T	uc001moi.2	+						GTF2H1_uc001moh.2_Intron|GTF2H1_uc009yhm.2_Intron|GTF2H1_uc001moj.2_Intron	NM_001142307	NP_001135779	P32780	TF2H1_HUMAN	general transcription factor IIH, polypeptide 1,						mRNA capping|nucleotide-excision repair, DNA damage removal|positive regulation of transcription from RNA polymerase II promoter|positive regulation of viral transcription|protein phosphorylation|regulation of cyclin-dependent protein kinase activity|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	holo TFIIH complex	protein binding				0						TTTTTTTCCCCTTTATTTTAA	0.413								NER					20	31	---	---	---	---	PASS
LDHA	3939	broad.mit.edu	37	11	18426984	18426984	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:18426984C>T	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	P00338	LDHA_HUMAN	lactate dehydrogenase A isoform 1						glycolysis|pyruvate metabolic process	cytosol	L-lactate dehydrogenase activity|protein binding			central_nervous_system(3)	3					NADH(DB00157)	CCTATGGTTTCCTATCATACA	0.378													9	44	---	---	---	---	PASS
TSG101	7251	broad.mit.edu	37	11	18503269	18503269	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:18503269G>A	uc001mor.2	-	9	1117	c.991C>T	c.(991-993)CTG>TTG	p.L331L		NM_006292	NP_006283	Q99816	TS101_HUMAN	tumor susceptibility gene 101	331	SB.				cell division|cellular membrane organization|endosome transport|interspecies interaction between organisms|non-lytic virus budding|protein transport|ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway	early endosome|late endosome membrane|multivesicular body|nucleolus|plasma membrane	calcium-dependent protein binding|DNA binding|transcription corepressor activity|ubiquitin binding|ubiquitin protein ligase binding				0						TCTGCATACAGATTCAGGATC	0.403													24	47	---	---	---	---	PASS
NAV2	89797	broad.mit.edu	37	11	20112443	20112443	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:20112443C>T	uc001mpr.3	+	27	5901	c.5540C>T	c.(5539-5541)ACC>ATC	p.T1847I	NAV2_uc001mpp.2_Missense_Mutation_p.T1780I|NAV2_uc009yhx.2_Missense_Mutation_p.T908I|NAV2_uc009yhz.2_Missense_Mutation_p.T489I|NAV2_uc001mpu.2_Missense_Mutation_p.T282I	NM_182964	NP_892009	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 1	1903	Potential.					nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						GAAGCTGAGACCGTCATGCAG	0.488													15	27	---	---	---	---	PASS
DBX1	120237	broad.mit.edu	37	11	20178223	20178223	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:20178223C>T	uc001mpw.1	-	4	686	c.686G>A	c.(685-687)AGG>AAG	p.R229K		NM_001029865	NP_001025036	A6NMT0	DBX1_HUMAN	developing brain homeobox 1	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					multicellular organismal development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						AGGCTCTGTCCTTCGGGCTGT	0.667													4	16	---	---	---	---	PASS
HTATIP2	10553	broad.mit.edu	37	11	20385820	20385820	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:20385820G>A	uc009yia.1	+	2	103	c.37G>A	c.(37-39)GAC>AAC	p.D13N	HTATIP2_uc009yib.1_Missense_Mutation_p.D13N|HTATIP2_uc001mpx.2_Missense_Mutation_p.D47N|HTATIP2_uc001mpz.2_Missense_Mutation_p.D13N|HTATIP2_uc001mpy.3_Missense_Mutation_p.D13N	NM_006410	NP_006401	Q9BUP3	HTAI2_HUMAN	HIV-1 Tat interactive protein 2, 30kDa isoform	13					angiogenesis|anti-apoptosis|apoptosis|cell differentiation|cellular amino acid metabolic process|induction of apoptosis|interspecies interaction between organisms|nuclear import|regulation of angiogenesis|regulation of transcription from RNA polymerase II promoter	cytoplasm|nuclear envelope	NAD binding|oxidoreductase activity, acting on the aldehyde or oxo group of donors, NAD or NADP as acceptor|protein binding|transcription coactivator activity				0						GCTTCGGGAAGACTTCAGGAT	0.527													29	47	---	---	---	---	PASS
ANO5	203859	broad.mit.edu	37	11	22283680	22283680	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:22283680C>T	uc001mqi.2	+	16	1953	c.1636C>T	c.(1636-1638)CCT>TCT	p.P546S	ANO5_uc001mqj.2_Missense_Mutation_p.P545S	NM_213599	NP_998764	Q75V66	ANO5_HUMAN	anoctamin 5 isoform a	546	Cytoplasmic (Potential).					chloride channel complex|endoplasmic reticulum membrane	chloride channel activity			central_nervous_system(3)|ovary(1)	4						AACAGAAATTCCTCGAACATA	0.343													13	26	---	---	---	---	PASS
SLC17A6	57084	broad.mit.edu	37	11	22360119	22360119	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:22360119G>A	uc001mqk.2	+	1	453	c.40G>A	c.(40-42)GAG>AAG	p.E14K		NM_020346	NP_065079	Q9P2U8	VGLU2_HUMAN	solute carrier family 17 (sodium-dependent	14	Cytoplasmic (Potential).				sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)|breast(1)	4						CCCAGGAAAAGAGGGGCTAAA	0.438													15	33	---	---	---	---	PASS
KCNA4	3739	broad.mit.edu	37	11	30032975	30032975	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:30032975G>A	uc001msk.2	-	2	2403	c.1251C>T	c.(1249-1251)ATC>ATT	p.I417I		NM_002233	NP_002224	P22459	KCNA4_HUMAN	potassium voltage-gated channel, shaker-related	417	Helical; Name=Segment S3; (Potential).					voltage-gated potassium channel complex	potassium ion binding|protein binding|voltage-gated potassium channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						TGCCCAGTGTGATGAAGTAAG	0.507													27	33	---	---	---	---	PASS
MPPED2	744	broad.mit.edu	37	11	30433031	30433031	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:30433031T>C	uc001msr.2	-	6	989	c.869A>G	c.(868-870)AAC>AGC	p.N290S	MPPED2_uc001msq.3_Intron|MPPED2_uc009yji.2_Missense_Mutation_p.N164S	NM_001584	NP_001575	Q15777	MPPD2_HUMAN	metallophosphoesterase domain containing 2	290					nervous system development		hydrolase activity|metal ion binding			skin(1)	1						ACCCTGTGGGTTTGGAAGGTC	0.413													19	28	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	11	30925158	30925158	+	RNA	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:30925158G>A	uc001mss.1	-	10		c.1484C>T			uc009yjk.1_Missense_Mutation_p.P909S|uc009yjj.1_RNA					Homo sapiens mRNA for KIAA1493 protein, partial cds.																		GTAAAGATTGGGGTTCCATCT	0.443													7	11	---	---	---	---	PASS
WT1	7490	broad.mit.edu	37	11	32452072	32452072	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:32452072G>A	uc001mtn.1	-						WT1_uc001mtl.1_Intron|WT1_uc001mtm.1_Intron|WT1_uc001mto.1_Intron|WT1_uc001mtp.1_Intron|WT1_uc001mtq.1_Intron|WT1_uc009yjs.1_Intron	NM_024426	NP_077744	P19544	WT1_HUMAN	Wilms tumor 1 isoform D						adrenal cortex formation|branching involved in ureteric bud morphogenesis|camera-type eye development|cardiac muscle cell fate commitment|cellular response to cAMP|cellular response to gonadotropin stimulus|germ cell development|glomerular basement membrane development|glomerular visceral epithelial cell differentiation|induction of apoptosis|male genitalia development|male gonad development|mesenchymal to epithelial transition|metanephric epithelium development|metanephric S-shaped body morphogenesis|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of female gonad development|negative regulation of metanephric glomerular mesangial cell proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|negative regulation of translation|positive regulation of male gonad development|positive regulation of transcription, DNA-dependent|posterior mesonephric tubule development|regulation of organ formation|RNA splicing|sex determination|vasculogenesis|visceral serous pericardium development	cytoplasm|nuclear speck|nucleoplasm	C2H2 zinc finger domain binding|RNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding		EWSR1/WT1(231)	haematopoietic_and_lymphoid_tissue(318)|soft_tissue(231)|kidney(132)|pleura(2)|lung(2)|upper_aerodigestive_tract(1)|peritoneum(1)	687	Breast(20;0.247)		OV - Ovarian serous cystadenocarcinoma(30;0.128)			TTCTCTAGACGAACCCTTCTC	0.398			D|Mis|N|F|S	EWSR1	Wilms|desmoplastic small round cell tumor	Wilms			Denys-Drash_syndrome|Frasier_syndrome|Familial_Wilms_tumor|Wilms_tumor-Aniridia-ambiguous_Genitals-mental_Retardation				5	9	---	---	---	---	PASS
CSTF3	1479	broad.mit.edu	37	11	33117897	33117897	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:33117897G>A	uc001muh.2	-	15	1496	c.1330C>T	c.(1330-1332)CCA>TCA	p.P444S	TCP11L1_uc001muf.1_Intron	NM_001326	NP_001317	Q12996	CSTF3_HUMAN	cleavage stimulation factor subunit 3 isoform 1	444					mRNA cleavage|mRNA polyadenylation|nuclear mRNA splicing, via spliceosome|termination of RNA polymerase II transcription	nucleoplasm	protein binding|RNA binding				0						ACATACTCTGGAATGTCTCCA	0.333													4	18	---	---	---	---	PASS
C11orf41	25758	broad.mit.edu	37	11	33566521	33566521	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:33566521G>A	uc001mup.3	+	2	2233	c.2109G>A	c.(2107-2109)AAG>AAA	p.K703K	C11orf41_uc001mun.1_Silent_p.K703K	NM_012194	NP_036326	Q6ZVL6	CK041_HUMAN	hypothetical protein LOC25758	697						integral to membrane				ovary(2)	2						CTGGCCCAAAGAGGACACCAG	0.527													12	41	---	---	---	---	PASS
NAT10	55226	broad.mit.edu	37	11	34152386	34152386	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:34152386C>T	uc001mvk.2	+	13	1515	c.1271C>T	c.(1270-1272)TCC>TTC	p.S424F	NAT10_uc010ren.1_Missense_Mutation_p.S352F	NM_024662	NP_078938	Q9H0A0	NAT10_HUMAN	N-acetyltransferase 10 isoform a	424						nucleolus	ATP binding|N-acetyltransferase activity|protein binding			ovary(1)|skin(1)	2		Acute lymphoblastic leukemia(5;0.0119)|all_hematologic(20;0.0231)				CGGTCACTGTCCCTCAAGCTA	0.542													9	34	---	---	---	---	PASS
SLC1A2	6506	broad.mit.edu	37	11	35308473	35308473	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:35308473G>A	uc001mwd.2	-	8	1709	c.1117C>T	c.(1117-1119)CGT>TGT	p.R373C	SLC1A2_uc001mwe.2_Missense_Mutation_p.R364C|SLC1A2_uc010rev.1_Missense_Mutation_p.R373C	NM_004171	NP_004162	P43004	EAA2_HUMAN	excitatory amino acid transporter 2	373					D-aspartate import|L-glutamate import|synaptic transmission	integral to membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|sodium:dicarboxylate symporter activity	p.T371fs*13(1)		ovary(2)|central_nervous_system(1)	3	all_lung(20;0.211)|all_epithelial(35;0.234)	all_hematologic(20;0.109)	STAD - Stomach adenocarcinoma(6;0.00731)		L-Glutamic Acid(DB00142)	TCCAGGCAACGAAAGGTGACA	0.453													30	99	---	---	---	---	PASS
SLC1A2	6506	broad.mit.edu	37	11	35313888	35313888	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:35313888G>A	uc001mwd.2	-	7	1629	c.1037C>T	c.(1036-1038)TCC>TTC	p.S346F	SLC1A2_uc001mwe.2_Missense_Mutation_p.S337F|SLC1A2_uc010rev.1_Missense_Mutation_p.S346F	NM_004171	NP_004162	P43004	EAA2_HUMAN	excitatory amino acid transporter 2	346					D-aspartate import|L-glutamate import|synaptic transmission	integral to membrane|membrane fraction	high-affinity glutamate transmembrane transporter activity|sodium:dicarboxylate symporter activity			ovary(2)|central_nervous_system(1)	3	all_lung(20;0.211)|all_epithelial(35;0.234)	all_hematologic(20;0.109)	STAD - Stomach adenocarcinoma(6;0.00731)		L-Glutamic Acid(DB00142)	AGCAAAAAAGGAGAAGGGGTT	0.478													79	127	---	---	---	---	PASS
PRR5L	79899	broad.mit.edu	37	11	36467879	36467879	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:36467879C>T	uc001mwo.3	+	7	863	c.474C>T	c.(472-474)TCC>TCT	p.S158S	PRR5L_uc001mwp.2_Silent_p.S158S|PRR5L_uc009ykk.2_Intron|PRR5L_uc010rfc.1_Silent_p.S158S	NM_001160167	NP_001153639	Q6MZQ0	PRR5L_HUMAN	protor-2 isoform a	158										ovary(1)	1						GCCAGATCTCCCTGCTGGGCT	0.607													11	22	---	---	---	---	PASS
TTC17	55761	broad.mit.edu	37	11	43472720	43472720	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:43472720C>T	uc001mxi.2	+						TTC17_uc010rfj.1_Intron|TTC17_uc001mxl.2_Intron	NM_018259	NP_060729	Q96AE7	TTC17_HUMAN	tetratricopeptide repeat domain 17								binding			ovary(5)	5						CTACTATCTTCCTTCCTTCCA	0.423													5	37	---	---	---	---	PASS
ACCSL	390110	broad.mit.edu	37	11	44069583	44069583	+	5'UTR	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:44069583G>A	uc001mxw.1	+	1					ACCSL_uc009ykr.2_5'UTR	NM_001031854	NP_001027025	Q4AC99	1A1L2_HUMAN	1-aminocyclopropane-1-carboxylate synthase								1-aminocyclopropane-1-carboxylate synthase activity|pyridoxal phosphate binding|transferase activity, transferring nitrogenous groups			ovary(5)	5						AAGATACCCGGAGTATGAGTC	0.557													12	37	---	---	---	---	PASS
PRDM11	56981	broad.mit.edu	37	11	45203363	45203363	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:45203363G>C	uc001myo.2	+	3	397	c.148G>C	c.(148-150)GTG>CTG	p.V50L		NM_020229	NP_064614	Q9NQV5	PRD11_HUMAN	PR domain containing 11	50										upper_aerodigestive_tract(1)	1						CAATGCAGCCGTGGGGGATAT	0.592													13	43	---	---	---	---	PASS
CHST1	8534	broad.mit.edu	37	11	45672150	45672150	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:45672150C>T	uc001mys.1	-	4	995	c.324G>A	c.(322-324)AAG>AAA	p.K108K		NM_003654	NP_003645	O43916	CHST1_HUMAN	carbohydrate (keratan sulfate Gal-6)	108	Lumenal (Potential).				galactose metabolic process|inflammatory response|keratan sulfate metabolic process	Golgi membrane|integral to membrane	keratan sulfotransferase activity			skin(4)|pancreas(1)	5				GBM - Glioblastoma multiforme(35;3e-06)|BRCA - Breast invasive adenocarcinoma(625;0.0781)		CGGCCGGGCTCTTGCCCTGGG	0.637													8	22	---	---	---	---	PASS
CHRM4	1132	broad.mit.edu	37	11	46407137	46407137	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:46407137G>A	uc001nct.1	-	1	971	c.971C>T	c.(970-972)CCC>CTC	p.P324L		NM_000741	NP_000732	P08173	ACM4_HUMAN	cholinergic receptor, muscarinic 4	324	Cytoplasmic (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)	GGGAGGGGCGGGCATGGCGGG	0.622													15	38	---	---	---	---	PASS
MADD	8567	broad.mit.edu	37	11	47297704	47297704	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:47297704G>A	uc001ner.1	+	4	1105	c.914G>A	c.(913-915)GGT>GAT	p.G305D	MADD_uc001neq.2_Missense_Mutation_p.G305D|MADD_uc001nev.1_Missense_Mutation_p.G305D|MADD_uc001nes.1_Missense_Mutation_p.G305D|MADD_uc001net.1_Missense_Mutation_p.G305D|MADD_uc009yln.1_Missense_Mutation_p.G305D|MADD_uc001neu.1_Missense_Mutation_p.G305D|MADD_uc001nex.2_Missense_Mutation_p.G305D|MADD_uc001nez.2_Missense_Mutation_p.G305D|MADD_uc001new.2_Missense_Mutation_p.G305D	NM_003682	NP_003673	Q8WXG6	MADD_HUMAN	MAP-kinase activating death domain-containing	305	DENN.				activation of MAPK activity|apoptosis|cell surface receptor linked signaling pathway|regulation of apoptosis|regulation of cell cycle	cytoplasm|integral to membrane|plasma membrane	death receptor binding|protein kinase activator activity|Rab guanyl-nucleotide exchange factor activity			ovary(5)|skin(4)|central_nervous_system(2)	11				Lung(87;0.182)		GAACTTCTAGGTGTGGACGCC	0.517													12	17	---	---	---	---	PASS
MADD	8567	broad.mit.edu	37	11	47306552	47306552	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:47306552C>T	uc001ner.1	+	13	2409	c.2218C>T	c.(2218-2220)CCT>TCT	p.P740S	MADD_uc001neq.2_Missense_Mutation_p.P740S|MADD_uc001nev.1_Missense_Mutation_p.P740S|MADD_uc001nes.1_Missense_Mutation_p.P740S|MADD_uc001net.1_Missense_Mutation_p.P740S|MADD_uc009yln.1_Missense_Mutation_p.P740S|MADD_uc001neu.1_Missense_Mutation_p.P740S|MADD_uc001nex.2_Missense_Mutation_p.P740S|MADD_uc001nez.2_Missense_Mutation_p.P740S|MADD_uc001new.2_Missense_Mutation_p.P740S	NM_003682	NP_003673	Q8WXG6	MADD_HUMAN	MAP-kinase activating death domain-containing	740					activation of MAPK activity|apoptosis|cell surface receptor linked signaling pathway|regulation of apoptosis|regulation of cell cycle	cytoplasm|integral to membrane|plasma membrane	death receptor binding|protein kinase activator activity|Rab guanyl-nucleotide exchange factor activity			ovary(5)|skin(4)|central_nervous_system(2)	11				Lung(87;0.182)		CAAGCCCCTCCCTTCCGTGCC	0.537													13	24	---	---	---	---	PASS
MADD	8567	broad.mit.edu	37	11	47306553	47306553	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:47306553C>T	uc001ner.1	+	13	2410	c.2219C>T	c.(2218-2220)CCT>CTT	p.P740L	MADD_uc001neq.2_Missense_Mutation_p.P740L|MADD_uc001nev.1_Missense_Mutation_p.P740L|MADD_uc001nes.1_Missense_Mutation_p.P740L|MADD_uc001net.1_Missense_Mutation_p.P740L|MADD_uc009yln.1_Missense_Mutation_p.P740L|MADD_uc001neu.1_Missense_Mutation_p.P740L|MADD_uc001nex.2_Missense_Mutation_p.P740L|MADD_uc001nez.2_Missense_Mutation_p.P740L|MADD_uc001new.2_Missense_Mutation_p.P740L	NM_003682	NP_003673	Q8WXG6	MADD_HUMAN	MAP-kinase activating death domain-containing	740					activation of MAPK activity|apoptosis|cell surface receptor linked signaling pathway|regulation of apoptosis|regulation of cell cycle	cytoplasm|integral to membrane|plasma membrane	death receptor binding|protein kinase activator activity|Rab guanyl-nucleotide exchange factor activity			ovary(5)|skin(4)|central_nervous_system(2)	11				Lung(87;0.182)		AAGCCCCTCCCTTCCGTGCCT	0.537													13	28	---	---	---	---	PASS
PSMC3	5702	broad.mit.edu	37	11	47446030	47446030	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:47446030G>A	uc001nfh.2	-	5	597	c.403C>T	c.(403-405)CCT>TCT	p.P135S	PSMC3_uc009ylr.1_Missense_Mutation_p.P93S	NM_002804	NP_002795	P17980	PRS6A_HUMAN	proteasome 26S ATPase subunit 3	135					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 complex	ATP binding|nucleoside-triphosphatase activity|protein binding|transcription coactivator activity|transcription corepressor activity			ovary(4)	4				Lung(87;0.0932)|BRCA - Breast invasive adenocarcinoma(625;0.13)		CCAATCACAGGAAGGAAGTAC	0.572													13	19	---	---	---	---	PASS
KBTBD4	55709	broad.mit.edu	37	11	47594481	47594481	+	3'UTR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:47594481C>T	uc001nfx.2	-	4					PTPMT1_uc001nfs.3_3'UTR|PTPMT1_uc001nfv.3_3'UTR|PTPMT1_uc009ylt.2_3'UTR|PTPMT1_uc001nfu.3_3'UTR|NDUFS3_uc001nft.3_Intron|KBTBD4_uc001nfw.1_3'UTR|KBTBD4_uc001nfz.2_3'UTR|KBTBD4_uc001nfy.2_3'UTR	NM_016506	NP_057590	Q9NVX7	KBTB4_HUMAN	kelch repeat and BTB (POZ) domain containing 4											ovary(1)|central_nervous_system(1)	2						TCCCCACAGCCTTAGGCCAAC	0.498													7	10	---	---	---	---	PASS
NUP160	23279	broad.mit.edu	37	11	47834527	47834527	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:47834527T>C	uc001ngm.2	-	15	1944	c.1859A>G	c.(1858-1860)GAT>GGT	p.D620G	NUP160_uc009ylw.2_RNA	NM_015231	NP_056046	Q12769	NU160_HUMAN	nucleoporin 160kDa	620					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						AACTGACATATCCACAGTTAC	0.383													19	35	---	---	---	---	PASS
OR4B1	119765	broad.mit.edu	37	11	48239290	48239290	+	3'UTR	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:48239290G>A	uc010rhs.1	+	1						NM_001005470	NP_001005470	Q8NGF8	OR4B1_HUMAN	olfactory receptor, family 4, subfamily B,						sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|ovary(1)|pancreas(1)	4						GGGAGGGAGTGAAAAAAGAGC	0.398													9	34	---	---	---	---	PASS
OR4C3	256144	broad.mit.edu	37	11	48346768	48346768	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:48346768C>T	uc010rhv.1	+	1	276	c.276C>T	c.(274-276)TCC>TCT	p.S92S		NM_001004702	NP_001004702	Q8NH37	OR4C3_HUMAN	olfactory receptor, family 4, subfamily C,	65	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						CCAACCTATCCTTTATTGACA	0.473													4	51	---	---	---	---	PASS
OR4A47	403253	broad.mit.edu	37	11	48511133	48511133	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:48511133C>T	uc010rhx.1	+	1	789	c.789C>T	c.(787-789)TTC>TTT	p.F263F		NM_001005512	NP_001005512	Q6IF82	O4A47_HUMAN	olfactory receptor, family 4, subfamily A,	263	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						CTAGGACCTTCCCCATTGACA	0.428													31	111	---	---	---	---	PASS
OR4A16	81327	broad.mit.edu	37	11	55111342	55111342	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55111342C>T	uc010rie.1	+	1	666	c.666C>T	c.(664-666)TTC>TTT	p.F222F		NM_001005274	NP_001005274	Q8NH70	O4A16_HUMAN	olfactory receptor, family 4, subfamily A,	222	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(2)|pancreas(1)	3						TCCTAAACTTCCTTAAAACTT	0.423													10	44	---	---	---	---	PASS
OR4A15	81328	broad.mit.edu	37	11	55135728	55135728	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55135728G>T	uc010rif.1	+	1	369	c.369G>T	c.(367-369)CAG>CAT	p.Q123H		NM_001005275	NP_001005275	Q8NGL6	O4A15_HUMAN	olfactory receptor, family 4, subfamily A,	123	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2						TTTCCTTTCAGGGTTGTATGG	0.398													5	84	---	---	---	---	PASS
OR4C6	219432	broad.mit.edu	37	11	55433044	55433044	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55433044G>C	uc001nht.3	+	3	667	c.402G>C	c.(400-402)ATG>ATC	p.M134I	OR4C6_uc010rik.1_Missense_Mutation_p.M134I	NM_001004704	NP_001004704	Q8NH72	OR4C6_HUMAN	olfactory receptor, family 4, subfamily C,	134	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						CGATCATCATGAGTCCACGGG	0.517													17	31	---	---	---	---	PASS
OR5D13	390142	broad.mit.edu	37	11	55541798	55541798	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55541798G>A	uc010ril.1	+	1	885	c.885G>A	c.(883-885)AGG>AGA	p.R295R		NM_001001967	NP_001001967	Q8NGL4	OR5DD_HUMAN	olfactory receptor, family 5, subfamily D,	295	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)|skin(1)	3		all_epithelial(135;0.196)				ACAGCCTTAGGAACAAAGATA	0.348													4	27	---	---	---	---	PASS
OR5L2	26338	broad.mit.edu	37	11	55594965	55594965	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55594965G>A	uc001nhy.1	+	1	271	c.271G>A	c.(271-273)GCC>ACC	p.A91T		NM_001004739	NP_001004739	Q8NGL0	OR5L2_HUMAN	olfactory receptor, family 5, subfamily L,	91	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		all_epithelial(135;0.208)				CAAGGACAAAGCCATCTCCTT	0.463										HNSCC(27;0.073)			60	60	---	---	---	---	PASS
OR5I1	10798	broad.mit.edu	37	11	55703698	55703698	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55703698G>A	uc010ris.1	-	1	179	c.179C>T	c.(178-180)CCC>CTC	p.P60L		NM_006637	NP_006628	Q13606	OR5I1_HUMAN	olfactory receptor, family 5, subfamily I,	60	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						AAAATACATGGGGGTTTGAAG	0.388													11	28	---	---	---	---	PASS
OR10AG1	282770	broad.mit.edu	37	11	55735698	55735698	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55735698C>T	uc010rit.1	-	1	242	c.242G>A	c.(241-243)GGA>GAA	p.G81E		NM_001005491	NP_001005491	Q8NH19	O10AG_HUMAN	olfactory receptor, family 10, subfamily AG,	81	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.0137)					AGAAATATTTCCTTTCTGAGT	0.383													23	35	---	---	---	---	PASS
OR10AG1	282770	broad.mit.edu	37	11	55735766	55735766	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55735766G>A	uc010rit.1	-	1	174	c.174C>T	c.(172-174)TCC>TCT	p.S58S		NM_001005491	NP_001005491	Q8NH19	O10AG_HUMAN	olfactory receptor, family 10, subfamily AG,	58	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.0137)					TTTCCAAAAGGGAAAAATTGC	0.348													11	50	---	---	---	---	PASS
OR5AS1	219447	broad.mit.edu	37	11	55798016	55798016	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55798016G>A	uc010riw.1	+	1	122	c.122G>A	c.(121-123)GGA>GAA	p.G41E		NM_001001921	NP_001001921	Q8N127	O5AS1_HUMAN	olfactory receptor, family 5, subfamily AS,	41	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(3)|liver(1)|skin(1)	5	Esophageal squamous(21;0.00693)					ACTATGGTCGGAAATATACTC	0.328													11	28	---	---	---	---	PASS
OR8I2	120586	broad.mit.edu	37	11	55861208	55861208	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55861208A>G	uc010rix.1	+	1	425	c.425A>G	c.(424-426)AAC>AGC	p.N142S		NM_001003750	NP_001003750	Q8N0Y5	OR8I2_HUMAN	olfactory receptor, family 8, subfamily I,	142	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1	Esophageal squamous(21;0.00693)					AAAGTGTCCAACTGGCTGGGA	0.448													16	45	---	---	---	---	PASS
OR8I2	120586	broad.mit.edu	37	11	55861587	55861587	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55861587C>T	uc010rix.1	+	1	804	c.804C>T	c.(802-804)ACC>ACT	p.T268T		NM_001003750	NP_001003750	Q8N0Y5	OR8I2_HUMAN	olfactory receptor, family 8, subfamily I,	268	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1	Esophageal squamous(21;0.00693)					CATCGCTGACCCAGGCGCAGG	0.458													8	59	---	---	---	---	PASS
OR8I2	120586	broad.mit.edu	37	11	55861617	55861617	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55861617G>A	uc010rix.1	+	1	834	c.834G>A	c.(832-834)ACG>ACA	p.T278T		NM_001003750	NP_001003750	Q8N0Y5	OR8I2_HUMAN	olfactory receptor, family 8, subfamily I,	278	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(1)	1	Esophageal squamous(21;0.00693)					TATTCTATACGATTGTCATTC	0.413													22	19	---	---	---	---	PASS
OR8H2	390151	broad.mit.edu	37	11	55872687	55872687	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55872687C>T	uc010riy.1	+	1	169	c.169C>T	c.(169-171)CAC>TAC	p.H57Y		NM_001005200	NP_001005200	Q8N162	OR8H2_HUMAN	olfactory receptor, family 8, subfamily H,	57	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	Esophageal squamous(21;0.00693)					CCTCCAGCTTCACACTCCCAT	0.423										HNSCC(53;0.14)			33	141	---	---	---	---	PASS
OR8H2	390151	broad.mit.edu	37	11	55872882	55872882	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55872882C>T	uc010riy.1	+	1	364	c.364C>T	c.(364-366)CGC>TGC	p.R122C		NM_001005200	NP_001005200	Q8N162	OR8H2_HUMAN	olfactory receptor, family 8, subfamily H,	122	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	Esophageal squamous(21;0.00693)					GGCCCATGATCGCTATGCAGC	0.458										HNSCC(53;0.14)			35	127	---	---	---	---	PASS
OR8H2	390151	broad.mit.edu	37	11	55873182	55873182	+	Missense_Mutation	SNP	C	T	T	rs150100978		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55873182C>T	uc010riy.1	+	1	664	c.664C>T	c.(664-666)CTC>TTC	p.L222F		NM_001005200	NP_001005200	Q8N162	OR8H2_HUMAN	olfactory receptor, family 8, subfamily H,	222	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	Esophageal squamous(21;0.00693)					TGTGTTCATTCTCTTTACCAT	0.403										HNSCC(53;0.14)			15	70	---	---	---	---	PASS
OR8J3	81168	broad.mit.edu	37	11	55904562	55904562	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:55904562C>T	uc010riz.1	-	1	633	c.633G>A	c.(631-633)ATG>ATA	p.M211I		NM_001004064	NP_001004064	Q8NGG0	OR8J3_HUMAN	olfactory receptor, family 8, subfamily J,	211	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2	Esophageal squamous(21;0.00693)					GAACTGTAATCATGGAAAAAA	0.358													23	34	---	---	---	---	PASS
OR5T2	219464	broad.mit.edu	37	11	56000184	56000184	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:56000184C>T	uc010rjc.1	-	1	478	c.478G>A	c.(478-480)GAT>AAT	p.D160N		NM_001004746	NP_001004746	Q8NGG2	OR5T2_HUMAN	olfactory receptor, family 5, subfamily T,	160	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					ACATAGCGATCATAAGCCATT	0.428													16	63	---	---	---	---	PASS
OR5T3	390154	broad.mit.edu	37	11	56020020	56020020	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:56020020C>T	uc010rjd.1	+	1	345	c.345C>T	c.(343-345)TTC>TTT	p.F115F		NM_001004747	NP_001004747	Q8NGG3	OR5T3_HUMAN	olfactory receptor, family 5, subfamily T,	115	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(21;0.00448)					TGGTCAATTTCCTGGCAAAAA	0.363													22	30	---	---	---	---	PASS
OR5T1	390155	broad.mit.edu	37	11	56043953	56043953	+	Missense_Mutation	SNP	C	T	T	rs149057096	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:56043953C>T	uc001nio.1	+	1	839	c.839C>T	c.(838-840)TCG>TTG	p.S280L		NM_001004745	NP_001004745	Q8NG75	OR5T1_HUMAN	olfactory receptor, family 5, subfamily T,	280	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|pancreas(1)	3	Esophageal squamous(21;0.00448)					AGCTACACTTCGGACAATGAC	0.408													44	73	---	---	---	---	PASS
OR8K3	219473	broad.mit.edu	37	11	56086200	56086200	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:56086200G>A	uc010rjf.1	+	1	418	c.418G>A	c.(418-420)GTA>ATA	p.V140I		NM_001005202	NP_001005202	Q8NH51	OR8K3_HUMAN	olfactory receptor, family 8, subfamily K,	140	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|large_intestine(1)|central_nervous_system(1)	4	Esophageal squamous(21;0.00448)					GTCACGAAGGGTATGTCAGGT	0.418													21	42	---	---	---	---	PASS
OR8K1	390157	broad.mit.edu	37	11	56113718	56113718	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:56113718C>T	uc010rjg.1	+	1	204	c.204C>T	c.(202-204)TTC>TTT	p.F68F		NM_001002907	NP_001002907	Q8NGG5	OR8K1_HUMAN	olfactory receptor, family 8, subfamily K,	68	Helical; Name=2; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					TGTACTTTTTCCTTAGACATT	0.408										HNSCC(65;0.19)			17	62	---	---	---	---	PASS
OR8K1	390157	broad.mit.edu	37	11	56114182	56114182	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:56114182C>T	uc010rjg.1	+	1	668	c.668C>T	c.(667-669)TCC>TTC	p.S223F		NM_001002907	NP_001002907	Q8NGG5	OR8K1_HUMAN	olfactory receptor, family 8, subfamily K,	223	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|pancreas(1)	2	Esophageal squamous(21;0.00448)					GTTCTCATATCCTACATGTTT	0.398										HNSCC(65;0.19)			7	34	---	---	---	---	PASS
OR8J1	219477	broad.mit.edu	37	11	56127806	56127806	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:56127806C>T	uc010rjh.1	+	1	84	c.84C>T	c.(82-84)TTC>TTT	p.F28F		NM_001005205	NP_001005205	Q8NGP2	OR8J1_HUMAN	olfactory receptor, family 8, subfamily J,	28	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					TTCCCCTCTTCCTGGTCTTTC	0.488													15	70	---	---	---	---	PASS
OR5R1	219479	broad.mit.edu	37	11	56185293	56185293	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:56185293C>T	uc010rji.1	-	1	416	c.416G>A	c.(415-417)AGA>AAA	p.R139K		NM_001004744	NP_001004744	Q8NH85	OR5R1_HUMAN	olfactory receptor, family 5, subfamily R,	139	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)	2	Esophageal squamous(21;0.00448)					AATGCAGACTCTTCTTGACAT	0.473													16	60	---	---	---	---	PASS
OR5M8	219484	broad.mit.edu	37	11	56258004	56258004	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:56258004G>A	uc001nix.1	-	1	843	c.843C>T	c.(841-843)ATC>ATT	p.I281I		NM_001005282	NP_001005282	Q8NGP6	OR5M8_HUMAN	olfactory receptor, family 5, subfamily M,	281	Helical; Name=7; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	Esophageal squamous(21;0.00352)					TCAGCATAGGGATTACTGTGG	0.328													6	37	---	---	---	---	PASS
OR5M8	219484	broad.mit.edu	37	11	56258235	56258235	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:56258235C>T	uc001nix.1	-	1	612	c.612G>A	c.(610-612)TGG>TGA	p.W204*		NM_001005282	NP_001005282	Q8NGP6	OR5M8_HUMAN	olfactory receptor, family 5, subfamily M,	204	Helical; Name=5; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	Esophageal squamous(21;0.00352)					AAGAAAGGTTCCAGCCAGCCA	0.398													8	41	---	---	---	---	PASS
OR5M11	219487	broad.mit.edu	37	11	56309974	56309974	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:56309974G>A	uc010rjl.1	-	1	760	c.760C>T	c.(760-762)CTC>TTC	p.L254F		NM_001005245	NP_001005245	Q96RB7	OR5MB_HUMAN	olfactory receptor, family 5, subfamily M,	254	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ATGCAAAAGAGAGTCCCATAA	0.438													11	75	---	---	---	---	PASS
OR5M1	390168	broad.mit.edu	37	11	56380053	56380053	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:56380053G>A	uc001nja.1	-	1	926	c.926C>T	c.(925-927)TCC>TTC	p.S309F		NM_001004740	NP_001004740	Q8NGP8	OR5M1_HUMAN	olfactory receptor, family 5, subfamily M,	309	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						TTTATGAAAGGATTTTCCCCT	0.383													30	95	---	---	---	---	PASS
OR5M1	390168	broad.mit.edu	37	11	56380724	56380724	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:56380724G>A	uc001nja.1	-	1	255	c.255C>T	c.(253-255)TTC>TTT	p.F85F		NM_001004740	NP_001004740	Q8NGP8	OR5M1_HUMAN	olfactory receptor, family 5, subfamily M,	85	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						GTTCTGAGAGGAAATTGTGCA	0.448													35	60	---	---	---	---	PASS
OR5AP2	338675	broad.mit.edu	37	11	56409132	56409132	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:56409132G>A	uc001njb.1	-	1	784	c.784C>T	c.(784-786)CTC>TTC	p.L262F		NM_001002925	NP_001002925	Q8NGF4	O5AP2_HUMAN	olfactory receptor, family 5, subfamily AP,	262	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4						TACATGAAGAGGATTGTTCCA	0.463													35	37	---	---	---	---	PASS
OR9G9	504191	broad.mit.edu	37	11	56467982	56467982	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:56467982G>A	uc010rjn.1	+	1	119	c.119G>A	c.(118-120)GGA>GAA	p.G40E		NM_001013358	NP_001013376	P0C7N8	OR9G9_HUMAN	olfactory receptor, family 9, subfamily G,	40	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						ACTGTGGTAGGAAATAGCACC	0.493													5	45	---	---	---	---	PASS
APLNR	187	broad.mit.edu	37	11	57004475	57004475	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:57004475C>T	uc001njo.2	-	1	453	c.4G>A	c.(4-6)GAG>AAG	p.E2K	APLNR_uc001njn.3_RNA	NM_005161	NP_005152	P35414	APJ_HUMAN	apelin receptor	2	Extracellular (Potential).					integral to plasma membrane	G-protein coupled receptor activity			lung(5)|ovary(1)	6						CCACCTTCCTCCATGCTGGGG	0.567													14	29	---	---	---	---	PASS
P2RX3	5024	broad.mit.edu	37	11	57118326	57118326	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:57118326G>A	uc001nju.2	+	8	872	c.796G>A	c.(796-798)GAC>AAC	p.D266N		NM_002559	NP_002550	P56373	P2RX3_HUMAN	purinergic receptor P2X3	266	Extracellular (Potential).				positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling	integral to plasma membrane	ATP binding|extracellular ATP-gated cation channel activity|purinergic nucleotide receptor activity				0						CACCCGGCTCGACAGCGTTTC	0.567													5	30	---	---	---	---	PASS
OR9Q1	219956	broad.mit.edu	37	11	57947718	57947718	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:57947718G>A	uc001nmj.2	+	3	1118	c.802G>A	c.(802-804)GAG>AAG	p.E268K		NM_001005212	NP_001005212	Q8NGQ5	OR9Q1_HUMAN	olfactory receptor, family 9, subfamily Q,	268	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(21;0.222)				TCAGTCTTCGGAGAAGAATCG	0.507													23	37	---	---	---	---	PASS
OR9Q2	219957	broad.mit.edu	37	11	57958765	57958765	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:57958765C>T	uc010rka.1	+	1	803	c.803C>T	c.(802-804)TCC>TTC	p.S268F		NM_001005283	NP_001005283	Q8NGE9	OR9Q2_HUMAN	olfactory receptor, family 9, subfamily Q,	268	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|breast(1)|central_nervous_system(1)	4		Breast(21;0.0589)				GGCCAGTCCTCCGAGGGAGAC	0.557													10	49	---	---	---	---	PASS
OR10W1	81341	broad.mit.edu	37	11	58035306	58035306	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:58035306G>A	uc001nmq.1	-	1	427	c.25C>T	c.(25-27)CCC>TCC	p.P9S		NM_207374	NP_997257	Q8NGF6	O10W1_HUMAN	olfactory receptor, family 10, subfamily W,	9	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Breast(21;0.0589)				GGGCAGGAGGGATAGGCCAGG	0.453													13	19	---	---	---	---	PASS
OR5B12	390191	broad.mit.edu	37	11	58206868	58206868	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:58206868C>T	uc010rkh.1	-	1	757	c.757G>A	c.(757-759)GGA>AGA	p.G253R		NM_001004733	NP_001004733	Q96R08	OR5BC_HUMAN	olfactory receptor, family 5, subfamily B,	253	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0	Esophageal squamous(5;0.0027)	Breast(21;0.0778)				ATAAAGATTCCTGTCCCATAA	0.443													18	26	---	---	---	---	PASS
MPEG1	219972	broad.mit.edu	37	11	58978323	58978323	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:58978323G>A	uc001nnu.3	-	1	2172	c.2016C>T	c.(2014-2016)ATC>ATT	p.I672I		NM_001039396	NP_001034485	Q2M385	MPEG1_HUMAN	macrophage expressed gene 1 precursor	672	Helical; (Potential).					integral to membrane				ovary(1)|skin(1)	2		all_epithelial(135;0.125)				TGGCCAAGGTGATAACAACAG	0.552													25	31	---	---	---	---	PASS
MPEG1	219972	broad.mit.edu	37	11	58979667	58979667	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:58979667G>A	uc001nnu.3	-	1	828	c.672C>T	c.(670-672)TCC>TCT	p.S224S		NM_001039396	NP_001034485	Q2M385	MPEG1_HUMAN	macrophage expressed gene 1 precursor	224	MACPF.|Extracellular (Potential).					integral to membrane				ovary(1)|skin(1)	2		all_epithelial(135;0.125)				CTTGGAGGAAGGAGGCCCTGA	0.552													6	11	---	---	---	---	PASS
OR5AN1	390195	broad.mit.edu	37	11	59132298	59132298	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:59132298C>T	uc010rks.1	+	1	367	c.367C>T	c.(367-369)CGT>TGT	p.R123C		NM_001004729	NP_001004729	Q8NGI8	O5AN1_HUMAN	olfactory receptor, family 5, subfamily AN,	123	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1						GGCTTATGATCGTTATGCTGC	0.453													33	39	---	---	---	---	PASS
OR4D10	390197	broad.mit.edu	37	11	59245164	59245164	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:59245164G>A	uc001nnz.1	+	1	262	c.262G>A	c.(262-264)GAA>AAA	p.E88K		NM_001004705	NP_001004705	Q8NGI6	OR4DA_HUMAN	olfactory receptor, family 4, subfamily D,	88	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3						CCTTCTGTCTGAAAGAAAGAC	0.433													49	62	---	---	---	---	PASS
TCN1	6947	broad.mit.edu	37	11	59626749	59626749	+	Intron	SNP	A	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:59626749A>C	uc001noj.2	-							NM_001062	NP_001053	P20061	TCO1_HUMAN	transcobalamin I precursor						cobalamin metabolic process|cobalamin transport|cobalt ion transport	extracellular region	cobalamin binding			ovary(2)	2		all_epithelial(135;0.198)			Cyanocobalamin(DB00115)|Hydroxocobalamin(DB00200)	ATCTGTCAGGAAACAAAACAT	0.249													18	44	---	---	---	---	PASS
MS4A6E	245802	broad.mit.edu	37	11	60105331	60105331	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:60105331G>A	uc001npd.2	+	2	279	c.265G>A	c.(265-267)GAA>AAA	p.E89K		NM_139249	NP_640342	Q96DS6	M4A6E_HUMAN	membrane-spanning 4-domains, subfamily A, member	89	Extracellular (Potential).					integral to membrane	receptor activity				0						TAAGTTGGACGAAAAGGATAT	0.453													9	66	---	---	---	---	PASS
MS4A14	84689	broad.mit.edu	37	11	60183468	60183468	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:60183468C>T	uc001npj.2	+	5	1592	c.1027C>T	c.(1027-1029)CAT>TAT	p.H343Y	MS4A14_uc001npi.2_Missense_Mutation_p.H231Y|MS4A14_uc001npn.2_Missense_Mutation_p.H81Y|MS4A14_uc001npk.2_Missense_Mutation_p.H326Y|MS4A14_uc001npl.2_Missense_Mutation_p.H81Y|MS4A14_uc001npm.2_Missense_Mutation_p.H81Y	NM_032597	NP_115986	Q96JA4	M4A14_HUMAN	membrane-spanning 4-domains, subfamily A, member	343						integral to membrane	receptor activity			breast(1)	1						TACATCATCCCATGTCAAACA	0.338													12	35	---	---	---	---	PASS
MS4A1	931	broad.mit.edu	37	11	60233386	60233386	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:60233386C>T	uc001npp.2	+						MS4A1_uc001npq.2_Intron|MS4A1_uc009yna.2_Intron|MS4A1_uc009ymz.2_Intron|MS4A1_uc010rlc.1_Intron	NM_152866	NP_690605	P11836	CD20_HUMAN	membrane-spanning 4-domains, subfamily A, member						B cell activation|immune response	integral to plasma membrane				ovary(3)|lung(2)	5					Ibritumomab(DB00078)|Rituximab(DB00073)|Tositumomab(DB00081)	TCTGTGTCTCCATTTCAGGTC	0.353													18	17	---	---	---	---	PASS
ZP1	22917	broad.mit.edu	37	11	60635145	60635145	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:60635145C>T	uc001nqd.2	+	1	131	c.111C>T	c.(109-111)CTC>CTT	p.L37L	ZP1_uc001nqe.2_5'Flank	NM_207341	NP_997224	P60852	ZP1_HUMAN	zona pellucida glycoprotein 1 precursor	37	Extracellular (Potential).				single fertilization	integral to membrane|plasma membrane|proteinaceous extracellular matrix					0						TCCCAGGCCTCCGGCACAGCT	0.662													6	14	---	---	---	---	PASS
DAGLA	747	broad.mit.edu	37	11	61511223	61511223	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:61511223C>T	uc001nsa.2	+	20	2502	c.2391C>T	c.(2389-2391)TCC>TCT	p.S797S		NM_006133	NP_006124	Q9Y4D2	DGLA_HUMAN	neural stem cell-derived dendrite regulator	797	Cytoplasmic (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)		CGCGCCGCTCCTCAGGCTTCC	0.672													11	41	---	---	---	---	PASS
FADS1	3992	broad.mit.edu	37	11	61578274	61578274	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:61578274G>T	uc010rlm.1	-	5	992	c.864C>A	c.(862-864)GAC>GAA	p.D288E	FADS1_uc001nsh.2_Missense_Mutation_p.D147E|FADS1_uc010rln.1_Missense_Mutation_p.D147E	NM_013402	NP_037534	O60427	FADS1_HUMAN	fatty acid desaturase 1	231	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)	GCATGTTGATGTCTGGGTCTT	0.562													32	52	---	---	---	---	PASS
AHNAK	79026	broad.mit.edu	37	11	62292480	62292480	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:62292480G>A	uc001ntl.2	-	5	9709	c.9409C>T	c.(9409-9411)CCA>TCA	p.P3137S	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	3137					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				TCCACATCTGGGGCATTAATA	0.468													88	112	---	---	---	---	PASS
AHNAK	79026	broad.mit.edu	37	11	62293705	62293705	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:62293705G>A	uc001ntl.2	-	5	8484	c.8184C>T	c.(8182-8184)TCC>TCT	p.S2728S	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	2728					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				CTTTAGGAAGGGAAACATCCA	0.478													59	76	---	---	---	---	PASS
AHNAK	79026	broad.mit.edu	37	11	62295384	62295384	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:62295384C>T	uc001ntl.2	-	5	6805	c.6505G>A	c.(6505-6507)GGG>AGG	p.G2169R	AHNAK_uc001ntk.1_Intron	NM_001620	NP_001611	Q09666	AHNK_HUMAN	AHNAK nucleoprotein isoform 1	2169					nervous system development	nucleus	protein binding			ovary(10)|pancreas(4)|skin(4)|upper_aerodigestive_tract(1)	19		Melanoma(852;0.155)				AACTTGGGCCCTTTCAACTTT	0.483													63	113	---	---	---	---	PASS
GANAB	23193	broad.mit.edu	37	11	62396262	62396262	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:62396262C>A	uc001nub.2	-	17	2192	c.2159G>T	c.(2158-2160)CGG>CTG	p.R720L	GANAB_uc001ntz.2_5'Flank|GANAB_uc001nua.2_Missense_Mutation_p.R742L|GANAB_uc001nuc.2_Missense_Mutation_p.R623L|GANAB_uc010rma.1_Missense_Mutation_p.R628L|GANAB_uc010rmb.1_Missense_Mutation_p.R606L	NM_198334	NP_938148	Q14697	GANAB_HUMAN	neutral alpha-glucosidase AB isoform 2	720					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						AATGCCTTCCCGATGGGCCTG	0.532													5	163	---	---	---	---	PASS
GANAB	23193	broad.mit.edu	37	11	62397434	62397434	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:62397434G>A	uc001nub.2	-						GANAB_uc001ntz.2_5'Flank|GANAB_uc001nua.2_Intron|GANAB_uc001nuc.2_Intron|GANAB_uc010rma.1_Intron|GANAB_uc010rmb.1_Intron	NM_198334	NP_938148	Q14697	GANAB_HUMAN	neutral alpha-glucosidase AB isoform 2						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						TGAGCCCTGGGAACGTGGGCA	0.483													9	45	---	---	---	---	PASS
MARK2	2011	broad.mit.edu	37	11	63676648	63676648	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:63676648C>T	uc001nxw.2	+	19	2885	c.2306C>T	c.(2305-2307)TCG>TTG	p.S769L	MARK2_uc001nxx.2_Missense_Mutation_p.S700L|MARK2_uc001nxy.2_Missense_Mutation_p.S690L|MARK2_uc001nxv.3_Missense_Mutation_p.S705L|MARK2_uc001nxz.3_Missense_Mutation_p.S726L|MARK2_uc009yoy.2_Missense_Mutation_p.S680L	NM_001039469	NP_001034558	Q7KZI7	MARK2_HUMAN	MAP/microtubule affinity-regulating kinase 2	769	KA1.				cell differentiation|establishment or maintenance of epithelial cell apical/basal polarity|intracellular protein kinase cascade|multicellular organismal development|response to oxidative stress	plasma membrane	ATP binding|magnesium ion binding|protein binding|protein serine/threonine kinase activity			stomach(1)|ovary(1)|lung(1)	3						AAGCGGATATCGGGCACCTCC	0.502													13	32	---	---	---	---	PASS
STIP1	10963	broad.mit.edu	37	11	63963138	63963138	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:63963138C>T	uc001nyk.1	+	5	672	c.525C>T	c.(523-525)ATC>ATT	p.I175I	STIP1_uc001nyj.2_Silent_p.I175I|STIP1_uc010rnb.1_Silent_p.I151I	NM_006819	NP_006810	P31948	STIP1_HUMAN	stress-induced-phosphoprotein 1	175					axon guidance|response to stress	Golgi apparatus|nucleus				ovary(2)|liver(1)	3						ATCCCCGGATCATGACCACTC	0.443													9	26	---	---	---	---	PASS
CCDC88B	283234	broad.mit.edu	37	11	64109193	64109193	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:64109193G>A	uc001nzy.2	+	7	698	c.654G>A	c.(652-654)CGG>CGA	p.R218R	CCDC88B_uc009ypo.1_Silent_p.R215R|CCDC88B_uc001nzz.1_5'Flank	NM_032251	NP_115627	A6NC98	CC88B_HUMAN	coiled-coil domain containing 88	218					microtubule cytoskeleton organization	cytoplasm	microtubule binding			ovary(3)|skin(1)	4						AGCTGGCACGGGAGCGTGACC	0.662													8	12	---	---	---	---	PASS
CCDC88B	283234	broad.mit.edu	37	11	64121476	64121476	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:64121476G>A	uc001nzy.2	+	24	3977	c.3933G>A	c.(3931-3933)AAG>AAA	p.K1311K	CCDC88B_uc009ypo.1_Silent_p.K1308K|CCDC88B_uc001oaa.2_Silent_p.K463K|CCDC88B_uc001oab.1_Silent_p.K142K|CCDC88B_uc001oac.2_Intron	NM_032251	NP_115627	A6NC98	CC88B_HUMAN	coiled-coil domain containing 88	1311					microtubule cytoskeleton organization	cytoplasm	microtubule binding			ovary(3)|skin(1)	4						TTGCCCCCAGGAAGGGCAGCT	0.473													4	9	---	---	---	---	PASS
RPS6KA4	8986	broad.mit.edu	37	11	64129364	64129364	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:64129364G>A	uc001oae.2	+	8	879	c.796G>A	c.(796-798)GGG>AGG	p.G266R	RPS6KA4_uc001oad.2_Missense_Mutation_p.G266R|RPS6KA4_uc010rnl.1_Missense_Mutation_p.G203R|RPS6KA4_uc001oaf.2_Missense_Mutation_p.G266R|RPS6KA4_uc009ypp.2_Missense_Mutation_p.G266R	NM_003942	NP_003933	O75676	KS6A4_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	266	Protein kinase 1.				axon guidance|histone phosphorylation|interleukin-1-mediated signaling pathway|intracellular protein kinase cascade|positive regulation of histone acetylation|positive regulation of histone phosphorylation|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	ATP binding|magnesium ion binding|mitogen-activated protein kinase p38 binding|ribosomal protein S6 kinase activity			lung(3)|ovary(1)|breast(1)	5						CCCTCGGATCGGGCCCGTGGC	0.682													7	28	---	---	---	---	PASS
RPS6KA4	8986	broad.mit.edu	37	11	64138829	64138829	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:64138829G>A	uc001oae.2	+	17	2279	c.2196G>A	c.(2194-2196)AAG>AAA	p.K732K	RPS6KA4_uc001oad.2_Silent_p.K726K|RPS6KA4_uc010rnl.1_Silent_p.K669K|RPS6KA4_uc001oaf.2_Silent_p.K725K|RPS6KA4_uc009ypp.2_Silent_p.K484K	NM_003942	NP_003933	O75676	KS6A4_HUMAN	ribosomal protein S6 kinase, 90kDa, polypeptide	732					axon guidance|histone phosphorylation|interleukin-1-mediated signaling pathway|intracellular protein kinase cascade|positive regulation of histone acetylation|positive regulation of histone phosphorylation|positive regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	ATP binding|magnesium ion binding|mitogen-activated protein kinase p38 binding|ribosomal protein S6 kinase activity			lung(3)|ovary(1)|breast(1)	5						AGCGGCGGAAGCAGAAGCTGC	0.706													9	15	---	---	---	---	PASS
NRXN2	9379	broad.mit.edu	37	11	64390376	64390376	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:64390376C>T	uc001oap.2	-	6	1395	c.884G>A	c.(883-885)GGG>GAG	p.G295E	NRXN2_uc001oar.2_Missense_Mutation_p.G1341E|NRXN2_uc001oas.2_Missense_Mutation_p.G1271E|NRXN2_uc001oao.2_5'UTR|NRXN2_uc001oaq.2_Missense_Mutation_p.G1008E	NM_138734	NP_620063	P58401	NRX2B_HUMAN	neurexin 2 isoform beta precursor	295	Extracellular (Potential).|Laminin G-like.				cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						CGGCCCCTCCCCCACCAGGCG	0.562													3	8	---	---	---	---	PASS
NRXN2	9379	broad.mit.edu	37	11	64434783	64434783	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:64434783G>A	uc001oar.2	-	10	2176	c.1737C>T	c.(1735-1737)TCC>TCT	p.S579S	NRXN2_uc001oas.2_Silent_p.S548S|NRXN2_uc001oaq.2_Silent_p.S246S	NM_015080	NP_055895	P58401	NRX2B_HUMAN	neurexin 2 isoform alpha-1 precursor	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						CCTTGCGGCTGGATGCCCGCA	0.607													36	44	---	---	---	---	PASS
NRXN2	9379	broad.mit.edu	37	11	64436053	64436053	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:64436053G>A	uc001oar.2	-	9	1660	c.1221C>T	c.(1219-1221)ATC>ATT	p.I407I	NRXN2_uc001oas.2_Silent_p.I376I|NRXN2_uc001oaq.2_Silent_p.I74I	NM_015080	NP_055895	P58401	NRX2B_HUMAN	neurexin 2 isoform alpha-1 precursor	221	Extracellular (Potential).|Laminin G-like.				cell adhesion	integral to membrane				upper_aerodigestive_tract(2)|central_nervous_system(2)|skin(2)|ovary(2)|kidney(1)|pancreas(1)	10						TGGTGGTCAGGATCCCGTCCA	0.577													32	51	---	---	---	---	PASS
PYGM	5837	broad.mit.edu	37	11	64527235	64527235	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:64527235C>T	uc001oax.3	-	1	953	c.136G>A	c.(136-138)GTG>ATG	p.V46M	PYGM_uc001oay.3_Missense_Mutation_p.V46M	NM_005609	NP_005600	P11217	PYGM_HUMAN	muscle glycogen phosphorylase isoform 1	46					glucose metabolic process|glycogen catabolic process	cytosol	glycogen phosphorylase activity|protein binding			ovary(2)	2					Pyridoxal Phosphate(DB00114)	GGGGTGGCCACATTGCGGTCC	0.582													19	113	---	---	---	---	PASS
EHD1	10938	broad.mit.edu	37	11	64645802	64645802	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:64645802G>A	uc001obu.1	-	1	390	c.135C>T	c.(133-135)TTC>TTT	p.F45F	EHD1_uc001obv.1_Silent_p.F45F|EHD1_uc010rnq.1_Silent_p.F59F	NM_006795	NP_006786	Q9H4M9	EHD1_HUMAN	EH-domain containing 1	45					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						CGGGCGAGTGGAACTCGTGGA	0.632													5	32	---	---	---	---	PASS
SNX15	29907	broad.mit.edu	37	11	64800004	64800004	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:64800004C>T	uc001oci.3	+	6	890	c.237C>T	c.(235-237)TTC>TTT	p.F79F	SNX15_uc009ypy.2_Silent_p.F79F|SNX15_uc001ocj.2_Silent_p.F79F|SNX15_uc001ock.2_Silent_p.F79F	NM_013306	NP_037438	Q9NRS6	SNX15_HUMAN	sorting nexin 15 isoform A	79	PX.				cell communication|intracellular protein transport	cytoplasmic vesicle membrane|cytosol	phosphatidylinositol binding|protein transporter activity			ovary(1)	1						TCCCTGCTTTCCCCCGGGCCC	0.627													10	21	---	---	---	---	PASS
NAALADL1	10004	broad.mit.edu	37	11	64822123	64822123	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:64822123C>T	uc001ocn.2	-	5	707	c.691G>A	c.(691-693)GAA>AAA	p.E231K	NAALADL1_uc010rnw.1_5'UTR	NM_005468	NP_005459	Q9UQQ1	NALDL_HUMAN	N-acetylated alpha-linked acidic	231	Extracellular (Potential).				proteolysis	apical plasma membrane|integral to membrane	carboxypeptidase activity|dipeptidase activity|metal ion binding|metallopeptidase activity				0						GGAAAGGTTTCGTCGGGTGAG	0.612											OREG0032001	type=REGULATORY REGION|TFbs=RELA|Dataset=RELA (p65) ChIP-PET Binding Sites|EvidenceSubtype=Chromatin immunoprecipitation with paired-end diTag sequencing (ChIP-PET)	7	11	---	---	---	---	PASS
C11orf2	738	broad.mit.edu	37	11	64876349	64876349	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:64876349C>T	uc001ocr.1	+	5	1446	c.1406C>T	c.(1405-1407)GCC>GTC	p.A469V	TM7SF2_uc001oct.2_5'Flank|TM7SF2_uc010rny.1_5'Flank|TM7SF2_uc001ocu.2_5'Flank|C11orf2_uc001ocs.1_Missense_Mutation_p.A345V	NM_013265	NP_037397	Q9UID3	FFR_HUMAN	chromosome 11 open reading frame 2	469					lipid transport|protein transport	Golgi apparatus|integral to membrane					0						CTTTTCACCGCCAAAGAGGTG	0.577													9	23	---	---	---	---	PASS
C11orf2	738	broad.mit.edu	37	11	64876395	64876395	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:64876395C>T	uc001ocr.1	+						TM7SF2_uc001oct.2_5'Flank|TM7SF2_uc010rny.1_5'Flank|TM7SF2_uc001ocu.2_5'Flank|TM7SF2_uc001ocv.2_5'Flank|C11orf2_uc001ocs.1_Intron	NM_013265	NP_037397	Q9UID3	FFR_HUMAN	chromosome 11 open reading frame 2						lipid transport|protein transport	Golgi apparatus|integral to membrane					0						GGGTACGCCTCCTCTTGGGTG	0.547													16	28	---	---	---	---	PASS
POLA2	23649	broad.mit.edu	37	11	65062097	65062097	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:65062097C>T	uc001odj.2	+	15	1776	c.1434C>T	c.(1432-1434)TTC>TTT	p.F478F	POLA2_uc010rod.1_Silent_p.F270F|POLA2_uc001odk.2_Silent_p.F175F	NM_002689	NP_002680	Q14181	DPOA2_HUMAN	DNA-directed DNA polymerase alpha 2	478					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	nucleoplasm	DNA binding				0					Dacarbazine(DB00851)	ATCTGCTTTTCCACCTGGGGG	0.517													13	27	---	---	---	---	PASS
MALAT1	378938	broad.mit.edu	37	11	65266596	65266596	+	RNA	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:65266596C>T	uc010roh.1	+	1		c.1364C>T			MALAT1_uc001odz.2_5'Flank	NR_002819				Homo sapiens clone alpha1 mRNA sequence.												0						GTTTTTTTCTCTTTGAAAGAT	0.423													12	18	---	---	---	---	PASS
MAP3K11	4296	broad.mit.edu	37	11	65373256	65373256	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:65373256G>A	uc001oew.2	-	8	2300	c.1807C>T	c.(1807-1809)CCT>TCT	p.P603S	MAP3K11_uc001oev.2_Missense_Mutation_p.P19S|MAP3K11_uc010rol.1_Missense_Mutation_p.P346S|MAP3K11_uc001oex.1_Missense_Mutation_p.P110S	NM_002419	NP_002410	Q16584	M3K11_HUMAN	mitogen-activated protein kinase kinase kinase	603	Pro-rich.				activation of JUN kinase activity|cell proliferation|G1 phase of mitotic cell cycle|microtubule-based process|positive regulation of JNK cascade|protein autophosphorylation	centrosome|microtubule	ATP binding|JUN kinase kinase kinase activity|mitogen-activated protein kinase kinase kinase binding|protein homodimerization activity			breast(3)|lung(1)|central_nervous_system(1)|skin(1)	6						GGTGTGGAAGGAGATCCTAAG	0.597													7	25	---	---	---	---	PASS
RELA	5970	broad.mit.edu	37	11	65421986	65421986	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:65421986C>T	uc001ofg.2	-	11	1659	c.1519G>A	c.(1519-1521)GCC>ACC	p.A507T	RELA_uc001ofh.2_Missense_Mutation_p.A504T|RELA_uc010ron.1_Missense_Mutation_p.A518T|RELA_uc009yqr.2_Missense_Mutation_p.A454T|RELA_uc001ofe.2_3'UTR|RELA_uc001off.2_Intron	NM_021975	NP_068810	Q04206	TF65_HUMAN	v-rel reticuloendotheliosis viral oncogene	507					anti-apoptosis|cellular defense response|cytokine-mediated signaling pathway|defense response to virus|inflammatory response|innate immune response|interspecies interaction between organisms|membrane protein intracellular domain proteolysis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription, DNA-dependent|nerve growth factor receptor signaling pathway|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of inflammatory response|response to interleukin-1|response to UV-B|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|transcription factor complex	activating transcription factor binding|chromatin binding|identical protein binding|NF-kappaB binding|phosphate binding|protein kinase binding|protein N-terminus binding|repressing transcription factor binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|ubiquitin protein ligase binding			lung(3)|ovary(1)	4						GGCCTCTGGGCCCCTGTCACT	0.622													16	12	---	---	---	---	PASS
RELA	5970	broad.mit.edu	37	11	65421987	65421987	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:65421987C>T	uc001ofg.2	-	11	1658	c.1518G>A	c.(1516-1518)GGG>GGA	p.G506G	RELA_uc001ofh.2_Silent_p.G503G|RELA_uc010ron.1_Silent_p.G517G|RELA_uc009yqr.2_Silent_p.G453G|RELA_uc001ofe.2_3'UTR|RELA_uc001off.2_Intron	NM_021975	NP_068810	Q04206	TF65_HUMAN	v-rel reticuloendotheliosis viral oncogene	506					anti-apoptosis|cellular defense response|cytokine-mediated signaling pathway|defense response to virus|inflammatory response|innate immune response|interspecies interaction between organisms|membrane protein intracellular domain proteolysis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription, DNA-dependent|nerve growth factor receptor signaling pathway|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of inflammatory response|response to interleukin-1|response to UV-B|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|transcription factor complex	activating transcription factor binding|chromatin binding|identical protein binding|NF-kappaB binding|phosphate binding|protein kinase binding|protein N-terminus binding|repressing transcription factor binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|ubiquitin protein ligase binding			lung(3)|ovary(1)	4						GCCTCTGGGCCCCTGTCACTA	0.622													16	12	---	---	---	---	PASS
RELA	5970	broad.mit.edu	37	11	65425808	65425808	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:65425808G>A	uc001ofg.2	-	8	967	c.827C>T	c.(826-828)TCC>TTC	p.S276F	RELA_uc001ofh.2_Missense_Mutation_p.S273F|RELA_uc010ron.1_Missense_Mutation_p.S287F|RELA_uc009yqr.2_Missense_Mutation_p.S223F|RELA_uc001ofe.2_Missense_Mutation_p.S276F|RELA_uc001off.2_Missense_Mutation_p.S276F|RELA_uc009yqs.1_Intron	NM_021975	NP_068810	Q04206	TF65_HUMAN	v-rel reticuloendotheliosis viral oncogene	276	RHD.			S->C: Loss of phosphorylation.	anti-apoptosis|cellular defense response|cytokine-mediated signaling pathway|defense response to virus|inflammatory response|innate immune response|interspecies interaction between organisms|membrane protein intracellular domain proteolysis|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of transcription, DNA-dependent|nerve growth factor receptor signaling pathway|nucleotide-binding oligomerization domain containing 2 signaling pathway|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|regulation of inflammatory response|response to interleukin-1|response to UV-B|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|transcription factor complex	activating transcription factor binding|chromatin binding|identical protein binding|NF-kappaB binding|phosphate binding|protein kinase binding|protein N-terminus binding|repressing transcription factor binding|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription regulatory region DNA binding|ubiquitin protein ligase binding			lung(3)|ovary(1)	4						CTCCCGGTCGGAAGGCCGCCG	0.637													3	6	---	---	---	---	PASS
KAT5	10524	broad.mit.edu	37	11	65480520	65480520	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:65480520G>A	uc001ofi.2	+	4	526	c.276G>A	c.(274-276)GAG>GAA	p.E92E	KAT5_uc001ofj.2_Silent_p.E92E|KAT5_uc001ofk.2_Silent_p.E125E|KAT5_uc010roo.1_Silent_p.E125E|KAT5_uc001ofl.2_5'UTR	NM_006388	NP_006379	Q92993	KAT5_HUMAN	K(lysine) acetyltransferase 5 isoform 2	92					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						GCTCTCCAGAGAGAGAGGTGG	0.572													10	48	---	---	---	---	PASS
PACS1	55690	broad.mit.edu	37	11	66001247	66001247	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:66001247C>T	uc001oha.1	+						PACS1_uc010rou.1_Intron	NM_018026	NP_060496	Q6VY07	PACS1_HUMAN	phosphofurin acidic cluster sorting protein 1						interspecies interaction between organisms|regulation of defense response to virus by virus|viral reproduction	cytosol	protein binding			ovary(6)	6						CGCTCCCCTTCCTCCCCAGCT	0.597													11	26	---	---	---	---	PASS
NPAS4	266743	broad.mit.edu	37	11	66192157	66192157	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:66192157C>T	uc001ohx.1	+	7	1972	c.1796C>T	c.(1795-1797)TCT>TTT	p.S599F	NPAS4_uc010rpc.1_Missense_Mutation_p.S389F	NM_178864	NP_849195	Q8IUM7	NPAS4_HUMAN	neuronal PAS domain protein 4	599					transcription, DNA-dependent		DNA binding|signal transducer activity				0						GGCCCCCTCTCTGTGGATGTC	0.577													26	41	---	---	---	---	PASS
DPP3	10072	broad.mit.edu	37	11	66260322	66260322	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:66260322C>T	uc001oig.1	+	10	1186	c.1124C>T	c.(1123-1125)TCC>TTC	p.S375F	DPP3_uc001oif.1_Missense_Mutation_p.S375F|DPP3_uc010rpe.1_Missense_Mutation_p.S364F	NM_005700	NP_005691	Q9NY33	DPP3_HUMAN	dipeptidyl peptidase III	375					proteolysis	cytoplasm	aminopeptidase activity|dipeptidyl-peptidase activity|metal ion binding|metallopeptidase activity			ovary(1)|skin(1)	2						GACTTCACCTCCCTGGATGTT	0.617													10	65	---	---	---	---	PASS
ACTN3	89	broad.mit.edu	37	11	66330597	66330597	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:66330597G>A	uc001oio.1	+	22	2657	c.2639G>A	c.(2638-2640)GGG>GAG	p.G880E	ACTN3_uc010rpi.1_RNA	NM_001104	NP_001095	Q08043	ACTN3_HUMAN	actinin, alpha 3	880					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						AAGGGATCCGGGGCCCCGGCT	0.632													16	11	---	---	---	---	PASS
CARNS1	57571	broad.mit.edu	37	11	67191509	67191509	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:67191509G>A	uc009yrp.2	+	9	2373	c.1921G>A	c.(1921-1923)GCG>ACG	p.A641T	PPP1CA_uc001okx.1_5'Flank|CARNS1_uc001olc.3_Missense_Mutation_p.A780T	NM_020811	NP_065862	A5YM72	CRNS1_HUMAN	ATP-grasp domain containing 1	641	ATP-grasp.				carnosine biosynthetic process		ATP binding|carnosine synthase activity|metal ion binding				0						CACTGAGACGGCGGCCTGCAT	0.642													7	10	---	---	---	---	PASS
GPR152	390212	broad.mit.edu	37	11	67220115	67220115	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:67220115G>A	uc001olm.2	-	1	86	c.81C>T	c.(79-81)CCC>CCT	p.P27P	uc009yrw.1_RNA|CABP4_uc001oln.2_5'UTR|CABP4_uc001olo.2_5'Flank	NM_206997	NP_996880	Q8TDT2	GP152_HUMAN	G protein-coupled receptor 152	27	Extracellular (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0			BRCA - Breast invasive adenocarcinoma(15;8.18e-06)			AGCCACCTTGGGGGTAGGAGT	0.652													5	10	---	---	---	---	PASS
CABP2	51475	broad.mit.edu	37	11	67287398	67287398	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:67287398C>T	uc001omc.1	-	6	605	c.503G>A	c.(502-504)GGG>GAG	p.G168E	CABP2_uc001omd.1_Missense_Mutation_p.G111E|CABP2_uc001ome.1_Missense_Mutation_p.G174E	NM_016366	NP_057450	Q9NPB3	CABP2_HUMAN	calcium binding protein 2 isoform 1	168	EF-hand 3.|2 (Potential).				signal transduction	Golgi apparatus|perinuclear region of cytoplasm|plasma membrane	calcium ion binding			skin(1)	1						GCGGCCGTCCCCATTGGTGTC	0.687													4	8	---	---	---	---	PASS
GSTP1	2950	broad.mit.edu	37	11	67353902	67353902	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:67353902C>T	uc001omf.2	+	7	736	c.487C>T	c.(487-489)CAT>TAT	p.H163Y	GSTP1_uc001omg.1_Missense_Mutation_p.H144Y	NM_000852	NP_000843	P09211	GSTP1_HUMAN	glutathione transferase	163	GST C-terminal.				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)	GCTGCTGATCCATGAGGTCCT	0.652													6	17	---	---	---	---	PASS
ALDH3B1	221	broad.mit.edu	37	11	67782875	67782875	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:67782875C>T	uc010rpy.1	+	2	224	c.108C>T	c.(106-108)TTC>TTT	p.F36F	ALDH3B1_uc001omy.1_Silent_p.F36F|ALDH3B1_uc001omz.2_Silent_p.F36F|ALDH3B1_uc001ona.2_Silent_p.F36F|ALDH3B1_uc001onb.2_5'Flank	NM_001161473	NP_001154945	P43353	AL3B1_HUMAN	aldehyde dehydrogenase 3B1 isoform a	36					alcohol metabolic process|cellular aldehyde metabolic process|lipid metabolic process		3-chloroallyl aldehyde dehydrogenase activity|aldehyde dehydrogenase				0					NADH(DB00157)	TGGGCCGCTTCCTGCAAGAAA	0.697													3	4	---	---	---	---	PASS
ALDH3B1	221	broad.mit.edu	37	11	67789267	67789267	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:67789267G>A	uc010rpy.1	+	8	992	c.876G>A	c.(874-876)CAG>CAA	p.Q292Q	ALDH3B1_uc001omz.2_Silent_p.Q292Q|ALDH3B1_uc001ona.2_Silent_p.Q255Q|ALDH3B1_uc001onb.2_RNA	NM_001161473	NP_001154945	P43353	AL3B1_HUMAN	aldehyde dehydrogenase 3B1 isoform a	292					alcohol metabolic process|cellular aldehyde metabolic process|lipid metabolic process		3-chloroallyl aldehyde dehydrogenase activity|aldehyde dehydrogenase				0					NADH(DB00157)	AACAGTTCCAGCGGCTGCGGG	0.647													6	26	---	---	---	---	PASS
NDUFS8	4728	broad.mit.edu	37	11	67800726	67800726	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:67800726C>T	uc001onc.2	+	5	455	c.348C>T	c.(346-348)CTC>CTT	p.L116L	NDUFS8_uc010rpz.1_Silent_p.L116L|NDUFS8_uc009ysb.1_Intron|NDUFS8_uc009ysc.1_Silent_p.L116L	NM_002496	NP_002487	O00217	NDUS8_HUMAN	NADH dehydrogenase ubiquinone Fe-S 8 precursor	116	4Fe-4S ferredoxin-type 1.				mitochondrial electron transport, NADH to ubiquinone|mitochondrial respiratory chain complex I assembly|response to oxidative stress|transport	mitochondrial respiratory chain complex I	4 iron, 4 sulfur cluster binding|electron carrier activity|metal ion binding|NADH dehydrogenase (ubiquinone) activity			skin(1)	1					NADH(DB00157)	CCTGCAAGCTCTGCGAGGCCA	0.622													4	6	---	---	---	---	PASS
CHKA	1119	broad.mit.edu	37	11	67833299	67833299	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:67833299G>A	uc001onj.2	-	9	1293	c.1079C>T	c.(1078-1080)CCT>CTT	p.P360L	CHKA_uc001onk.2_Missense_Mutation_p.P342L	NM_001277	NP_001268	P35790	CHKA_HUMAN	choline kinase alpha isoform a	360					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)	TCTGAAAAAAGGGTATTTTTC	0.373													10	20	---	---	---	---	PASS
SUV420H1	51111	broad.mit.edu	37	11	67925262	67925262	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:67925262G>A	uc001onm.1	-	11	2807	c.2551C>T	c.(2551-2553)CCT>TCT	p.P851S	SUV420H1_uc009yse.1_Missense_Mutation_p.P437S|SUV420H1_uc001onn.1_Missense_Mutation_p.P679S|SUV420H1_uc009ysf.2_Missense_Mutation_p.P611S	NM_017635	NP_060105	Q4FZB7	SV421_HUMAN	suppressor of variegation 4-20 homolog 1 isoform	851					regulation of transcription, DNA-dependent|transcription, DNA-dependent		protein binding			ovary(2)|kidney(1)	3						GGAGGAAGAGGAATAAAATCG	0.393													11	20	---	---	---	---	PASS
LRP5	4041	broad.mit.edu	37	11	68115552	68115552	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:68115552C>T	uc001ont.2	+	2	404	c.329C>T	c.(328-330)CCC>CTC	p.P110L	LRP5_uc009ysg.2_5'UTR	NM_002335	NP_002326	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein	110	Beta-propeller 1.|LDL-receptor class B 1.|Extracellular (Potential).				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						CTGGTCTCTCCCGACGGCCTC	0.632													34	40	---	---	---	---	PASS
LRP5	4041	broad.mit.edu	37	11	68115652	68115652	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:68115652G>A	uc001ont.2	+	2	504	c.429G>A	c.(427-429)AAG>AAA	p.K143K	LRP5_uc009ysg.2_5'UTR	NM_002335	NP_002326	O75197	LRP5_HUMAN	low density lipoprotein receptor-related protein	143	Beta-propeller 1.|LDL-receptor class B 2.|Extracellular (Potential).				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						CATCCCGGAAGGTGCTCTTCT	0.662													23	38	---	---	---	---	PASS
TPCN2	219931	broad.mit.edu	37	11	68822765	68822765	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:68822765C>A	uc001oos.2	+	4	490	c.374C>A	c.(373-375)ACC>AAC	p.T125N	TPCN2_uc009ysk.1_RNA|TPCN2_uc001oor.2_Intron|TPCN2_uc010rqg.1_Missense_Mutation_p.T125N	NM_139075	NP_620714	Q8NHX9	TPC2_HUMAN	two pore segment channel 2	125	Extracellular (Potential).				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)			TGCGGCCTGACCGAGAGTGTC	0.662													4	15	---	---	---	---	PASS
TPCN2	219931	broad.mit.edu	37	11	68837886	68837886	+	Intron	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:68837886T>A	uc001oos.2	+						TPCN2_uc009ysk.1_Intron|TPCN2_uc001oor.2_Intron|TPCN2_uc010rqg.1_Intron|TPCN2_uc001oot.2_5'Flank	NM_139075	NP_620714	Q8NHX9	TPC2_HUMAN	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)			TGTTATTTCTTTTTTCTTTTA	0.428													15	35	---	---	---	---	PASS
MYEOV	26579	broad.mit.edu	37	11	69063187	69063187	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:69063187G>A	uc001oov.2	+	3	720	c.270G>A	c.(268-270)GTG>GTA	p.V90V	MYEOV_uc001oox.2_Intron|MYEOV_uc009ysl.2_Silent_p.V90V|MYEOV_uc001oow.2_Silent_p.V32V	NM_138768	NP_620123	Q96EZ4	MYEOV_HUMAN	myeloma overexpressed	90											0	all_lung(4;2.21e-19)|Lung NSC(4;6.13e-19)|Melanoma(5;0.00128)		LUSC - Lung squamous cell carcinoma(11;3.33e-11)|STAD - Stomach adenocarcinoma(18;0.00654)|LUAD - Lung adenocarcinoma(13;0.0713)	Kidney(183;2.99e-09)|KIRC - Kidney renal clear cell carcinoma(183;3.23e-08)|Lung(977;0.00361)|LUSC - Lung squamous cell carcinoma(976;0.0153)		GTGTTGCGGTGAGAGGAGCAT	0.637													9	41	---	---	---	---	PASS
FGF3	2248	broad.mit.edu	37	11	69631136	69631136	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:69631136G>A	uc001oph.2	-	2	767	c.276C>T	c.(274-276)TTC>TTT	p.F92F		NM_005247	NP_005238	P11487	FGF3_HUMAN	fibroblast growth factor 3 precursor	92					fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|negative regulation of cardiac muscle tissue development|positive regulation of cell division|positive regulation of cell proliferation	extracellular region	growth factor activity			ovary(1)|lung(1)	2			LUSC - Lung squamous cell carcinoma(11;5.05e-15)|STAD - Stomach adenocarcinoma(18;0.0278)			ACCGCCCGGAGAAGAGACCCC	0.612													21	35	---	---	---	---	PASS
ANO1	55107	broad.mit.edu	37	11	70033894	70033894	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:70033894C>T	uc001opj.2	+	26	3050	c.2745C>T	c.(2743-2745)ATC>ATT	p.I915I	ANO1_uc001opl.1_RNA|ANO1_uc010rqk.1_Silent_p.I624I|ANO1_uc010rql.1_Silent_p.I89I	NM_018043	NP_060513	Q5XXA6	ANO1_HUMAN	anoctamin 1, calcium activated chloride channel	915	Cytoplasmic (Potential).				multicellular organismal development	chloride channel complex|cytoplasm|plasma membrane	intracellular calcium activated chloride channel activity			ovary(1)|pancreas(1)	2						TCCCGGACATCCCCAAGGACA	0.582													7	15	---	---	---	---	PASS
SHANK2	22941	broad.mit.edu	37	11	70319386	70319386	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:70319386G>A	uc001oqc.2	-	22	5216	c.5138C>T	c.(5137-5139)TCG>TTG	p.S1713L	SHANK2_uc010rqn.1_Missense_Mutation_p.S1125L|SHANK2_uc001opz.2_Missense_Mutation_p.S1118L|uc009ysn.1_Intron|SHANK2_uc001opy.2_Missense_Mutation_p.S49L	NM_012309	NP_036441	Q9UPX8	SHAN2_HUMAN	SH3 and multiple ankyrin repeat domains 2	1334					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)			CTCTGTTGGCGAGACCACAGG	0.632													6	22	---	---	---	---	PASS
FAM86C	55199	broad.mit.edu	37	11	71502842	71502842	+	Intron	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:71502842T>A	uc001oqv.3	+						FAM86C_uc009ysr.2_Missense_Mutation_p.F73I|FAM86C_uc001oqw.3_Intron|FAM86C_uc009yss.2_RNA|FAM86C_uc010rqq.1_Intron	NM_018172	NP_060642	Q9NVL1	FA86C_HUMAN	hypothetical protein LOC55199 isoform 1												0						TGCCCGGTGCTTTCTCTCAGA	0.448													14	29	---	---	---	---	PASS
FCHSD2	9873	broad.mit.edu	37	11	72712089	72712089	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:72712089G>A	uc009ytl.2	-	5	554	c.333C>T	c.(331-333)TTC>TTT	p.F111F	FCHSD2_uc010rrg.1_Intron|FCHSD2_uc001oth.3_Silent_p.F55F|FCHSD2_uc001oti.2_Silent_p.F70F	NM_014824	NP_055639	O94868	FCSD2_HUMAN	FCH and double SH3 domains 2	111							protein binding			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(5;3.3e-05)			GCTCAGAAATGAAGTTTTTAT	0.363													9	15	---	---	---	---	PASS
P2RY2	5029	broad.mit.edu	37	11	72945194	72945194	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:72945194C>T	uc001otj.2	+						P2RY2_uc001otk.2_5'UTR|P2RY2_uc001otl.2_Intron	NM_002564	NP_002555	P41231	P2RY2_HUMAN	purinergic receptor P2Y2						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)	CCCTCCCTTCCCTGCAGGGCG	0.632													3	19	---	---	---	---	PASS
ARHGEF17	9828	broad.mit.edu	37	11	73076728	73076728	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:73076728G>A	uc001otu.2	+	20	5752	c.5731G>A	c.(5731-5733)GAT>AAT	p.D1911N		NM_014786	NP_055601	Q96PE2	ARHGH_HUMAN	Rho guanine nucleotide exchange factor (GEF) 17	1911					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						CCCAGGCTCGGATGCCATCAT	0.637													8	13	---	---	---	---	PASS
MAP6	4135	broad.mit.edu	37	11	75298965	75298965	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:75298965C>T	uc001owu.2	-	4	1646	c.1581G>A	c.(1579-1581)AAG>AAA	p.K527K		NM_033063	NP_149052	Q96JE9	MAP6_HUMAN	microtubule-associated protein 6 isoform 1	527	Pro-rich.					Golgi apparatus|microtubule|perinuclear region of cytoplasm	calmodulin binding				0	Ovarian(111;0.11)					GACCTTGGTCCTTGACTGGTG	0.483													7	64	---	---	---	---	PASS
MOGAT2	80168	broad.mit.edu	37	11	75438599	75438599	+	Silent	SNP	G	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:75438599G>C	uc010rru.1	+	3	390	c.390G>C	c.(388-390)TCG>TCC	p.S130S	MOGAT2_uc001oww.1_Silent_p.S130S|MOGAT2_uc010rrv.1_Silent_p.S48S	NM_025098	NP_079374	Q3SYC2	MOGT2_HUMAN	monoacylglycerol O-acyltransferase 2	130					glycerol metabolic process	endoplasmic reticulum membrane|integral to membrane	2-acylglycerol O-acyltransferase activity			ovary(2)	2	Ovarian(111;0.103)					GCTTCTCTTCGATCTTCCCCG	0.572													21	26	---	---	---	---	PASS
DGAT2	84649	broad.mit.edu	37	11	75501768	75501768	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:75501768C>T	uc001oxa.2	+	4	680	c.421C>T	c.(421-423)CCC>TCC	p.P141S	DGAT2_uc001oxb.2_Missense_Mutation_p.P98S	NM_032564	NP_115953	Q96PD7	DGAT2_HUMAN	diacylglycerol O-acyltransferase 2	141	Cytoplasmic (Potential).				glycerol metabolic process|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane	diacylglycerol O-acyltransferase activity				0	Ovarian(111;0.103)					AGACTACTTTCCCATCCAGGT	0.527													12	19	---	---	---	---	PASS
C11orf30	56946	broad.mit.edu	37	11	76255758	76255758	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:76255758C>T	uc001oxl.2	+	19	3308	c.3165C>T	c.(3163-3165)CTC>CTT	p.L1055L	C11orf30_uc001oxm.2_Silent_p.L957L|C11orf30_uc010rsb.1_Silent_p.L1070L|C11orf30_uc010rsc.1_Silent_p.L1056L|C11orf30_uc001oxn.2_Silent_p.L1056L|C11orf30_uc010rsd.1_Silent_p.L964L|C11orf30_uc001oxo.1_Silent_p.L409L|C11orf30_uc010rse.1_Silent_p.L302L|C11orf30_uc001oxp.2_Silent_p.L155L	NM_020193	NP_064578	Q7Z589	EMSY_HUMAN	EMSY protein	1055	Gln-rich.				chromatin modification|DNA repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus				ovary(5)|skin(1)	6						CGCAGCAGCTCCCTAAACTGC	0.547													28	71	---	---	---	---	PASS
TSKU	25987	broad.mit.edu	37	11	76506861	76506861	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:76506861C>T	uc001oxt.2	+	2	373	c.201C>T	c.(199-201)TCC>TCT	p.S67S		NM_015516	NP_056331	Q8WUA8	TSK_HUMAN	tsukushin precursor	67	LRR 1.					extracellular region					0	Ovarian(111;0.112)					ACCTGTCCTCCAACCGGCTGG	0.632													17	23	---	---	---	---	PASS
MYO7A	4647	broad.mit.edu	37	11	76867051	76867051	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:76867051G>A	uc001oyb.2	+	5	656	c.384G>A	c.(382-384)GGG>GGA	p.G128G	MYO7A_uc010rsl.1_Silent_p.G128G|MYO7A_uc010rsm.1_Silent_p.G117G|MYO7A_uc001oyc.2_Silent_p.G128G	NM_000260	NP_000251	Q13402	MYO7A_HUMAN	myosin VIIA isoform 1	128	Myosin head-like.				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						AGAAGATTGGGGAGATGCCCC	0.562													5	16	---	---	---	---	PASS
TMEM126B	55863	broad.mit.edu	37	11	85347169	85347169	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:85347169A>G	uc001pao.2	+	6	751	c.499A>G	c.(499-501)ATG>GTG	p.M167V	TMEM126B_uc001pap.2_Missense_Mutation_p.M167V|TMEM126B_uc001paq.1_3'UTR	NM_018480	NP_060950	Q8IUX1	T126B_HUMAN	transmembrane protein 126B	197						integral to membrane					0		Acute lymphoblastic leukemia(157;4.88e-06)|all_hematologic(158;0.00572)				AATGAAATTAATGGCGATTCC	0.338													9	38	---	---	---	---	PASS
CCDC81	60494	broad.mit.edu	37	11	86098551	86098551	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:86098551C>T	uc001pbx.1	+						CCDC81_uc001pbw.1_Intron	NM_001156474	NP_001149946	Q6ZN84	CCD81_HUMAN	coiled-coil domain containing 81 isoform 1											skin(1)	1		Acute lymphoblastic leukemia(157;5.51e-06)|all_hematologic(158;0.00535)				TTGTTTTTTCCTTTCAGGGGG	0.338													19	40	---	---	---	---	PASS
FOLH1B	219595	broad.mit.edu	37	11	89424219	89424219	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:89424219G>A	uc001pda.2	+	11	1395	c.869G>A	c.(868-870)CGA>CAA	p.R290Q		NM_153696	NP_710163	Q9HBA9	FOH1B_HUMAN	folate hydrolase 1B	290					proteolysis	cytoplasm	dipeptidase activity|metal ion binding|metallopeptidase activity			ovary(3)|skin(2)|central_nervous_system(1)	6						TTTGATTGTCGAGATTATGCT	0.373													10	45	---	---	---	---	PASS
FAT3	120114	broad.mit.edu	37	11	92087415	92087415	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:92087415C>T	uc001pdj.3	+	1	2154	c.2137C>T	c.(2137-2139)CTT>TTT	p.L713F		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	713	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)				AGATGGATTTCTTGACTTTTA	0.408										TCGA Ovarian(4;0.039)			41	77	---	---	---	---	PASS
FAT3	120114	broad.mit.edu	37	11	92088352	92088352	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:92088352C>T	uc001pdj.3	+	1	3091	c.3074C>T	c.(3073-3075)TCC>TTC	p.S1025F		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	1025	Cadherin 9.|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)				TCATCTGTTTCCTTTGTTGAG	0.458										TCGA Ovarian(4;0.039)			6	34	---	---	---	---	PASS
FAT3	120114	broad.mit.edu	37	11	92532092	92532092	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:92532092G>A	uc001pdj.3	+	9	5930	c.5913G>A	c.(5911-5913)ATG>ATA	p.M1971I		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	1971	Cadherin 17.|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)				TCACCATCATGGTTAAAGAAG	0.413										TCGA Ovarian(4;0.039)			29	111	---	---	---	---	PASS
FAT3	120114	broad.mit.edu	37	11	92533403	92533403	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:92533403C>T	uc001pdj.3	+	9	7241	c.7224C>T	c.(7222-7224)CCC>CCT	p.P2408P		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2408	Cadherin 22.|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)				AATTAGCCCCCCGGGGCCATT	0.443										TCGA Ovarian(4;0.039)			35	38	---	---	---	---	PASS
FAT3	120114	broad.mit.edu	37	11	92534585	92534585	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:92534585C>T	uc001pdj.3	+	9	8423	c.8406C>T	c.(8404-8406)ATC>ATT	p.I2802I		NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	2802	Extracellular (Potential).|Cadherin 25.				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)				ATGTAGATATCAAGGTATTGG	0.433										TCGA Ovarian(4;0.039)			17	19	---	---	---	---	PASS
FAT3	120114	broad.mit.edu	37	11	92600132	92600132	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:92600132G>A	uc001pdj.3	+	21	11901	c.11884G>A	c.(11884-11886)GTG>ATG	p.V3962M	FAT3_uc001pdi.3_Missense_Mutation_p.V402M	NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	3962	Laminin G-like.|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)				CGGCGCCCTGGTGCAAGCGGA	0.617										TCGA Ovarian(4;0.039)			5	6	---	---	---	---	PASS
FAT3	120114	broad.mit.edu	37	11	92616106	92616106	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:92616106C>T	uc001pdj.3	+	23	12501	c.12484C>T	c.(12484-12486)CTC>TTC	p.L4162F	FAT3_uc001pdi.3_Missense_Mutation_p.L602F	NM_001008781	NP_001008781	Q8TDW7	FAT3_HUMAN	FAT tumor suppressor homolog 3	4162	Helical; (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)				CGCCGTGGTCCTCTTCGTCAT	0.592										TCGA Ovarian(4;0.039)			6	11	---	---	---	---	PASS
SLC36A4	120103	broad.mit.edu	37	11	92918976	92918976	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:92918976C>T	uc001pdn.2	-	2	157	c.60G>A	c.(58-60)ATG>ATA	p.M20I	SLC36A4_uc001pdm.2_5'UTR	NM_152313	NP_689526	Q6YBV0	S36A4_HUMAN	solute carrier family 36 (proton/amino acid	20					L-alanine transport|proline transport|tryptophan transport	integral to membrane	symporter activity			ovary(2)|upper_aerodigestive_tract(1)	3		Acute lymphoblastic leukemia(157;2.26e-05)|all_hematologic(158;0.0123)				TCATTACATCCATATCTTTAA	0.333													10	33	---	---	---	---	PASS
CCDC67	159989	broad.mit.edu	37	11	93148188	93148188	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:93148188A>T	uc001pdq.2	+	13	1646	c.1546A>T	c.(1546-1548)AAC>TAC	p.N516Y	CCDC67_uc001pdo.1_Missense_Mutation_p.N516Y	NM_181645	NP_857596	Q05D60	CCD67_HUMAN	coiled-coil domain containing 67	516										ovary(1)	1		Acute lymphoblastic leukemia(157;2.35e-05)|all_hematologic(158;0.00824)				CTGTGAGCCAAACAGAAGTAC	0.393													28	57	---	---	---	---	PASS
KDM4D	55693	broad.mit.edu	37	11	94730726	94730726	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:94730726G>A	uc001pfe.2	+	3	1022	c.190G>A	c.(190-192)GAT>AAT	p.D64N		NM_018039	NP_060509	Q6B0I6	KDM4D_HUMAN	jumonji domain containing 2D	64					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				0						AGAGACCTATGATAATATCAG	0.438													8	53	---	---	---	---	PASS
ENDOD1	23052	broad.mit.edu	37	11	94862074	94862074	+	Silent	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:94862074A>G	uc001pfh.2	+	2	909	c.834A>G	c.(832-834)AAA>AAG	p.K278K		NM_015036	NP_055851	O94919	ENDD1_HUMAN	endonuclease domain containing 1 precursor	278						extracellular region	endonuclease activity|metal ion binding|nucleic acid binding				0		Acute lymphoblastic leukemia(157;2.33e-05)|all_hematologic(158;0.00824)				ACACAGAGAAAATGAAAAAAA	0.403													20	49	---	---	---	---	PASS
CNTN5	53942	broad.mit.edu	37	11	99690452	99690452	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:99690452C>T	uc001pga.2	+	4	572	c.233C>T	c.(232-234)TCC>TTC	p.S78F	CNTN5_uc009ywv.1_Missense_Mutation_p.S78F|CNTN5_uc001pfz.2_Missense_Mutation_p.S78F|CNTN5_uc001pgb.2_Intron	NM_014361	NP_055176	O94779	CNTN5_HUMAN	contactin 5 isoform long	78					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)		AATTATTATTCCCCCATCAAT	0.343													5	21	---	---	---	---	PASS
PGR	5241	broad.mit.edu	37	11	100933363	100933363	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:100933363G>A	uc001pgh.2	-	4	2770	c.2027C>T	c.(2026-2028)TCA>TTA	p.S676L	PGR_uc001pgg.2_Missense_Mutation_p.S57L|PGR_uc001pgi.2_Intron|PGR_uc009yww.1_Intron|PGR_uc001pgj.2_RNA|PGR_uc009ywx.1_RNA	NM_000926	NP_000917	P06401	PRGR_HUMAN	progesterone receptor	676					cell-cell signaling|regulation of transcription from RNA polymerase II promoter by nuclear hormone receptor	cytoplasm|nucleoplasm	enzyme binding|receptor binding|sequence-specific DNA binding transcription factor activity|steroid binding|steroid hormone receptor activity|zinc ion binding			lung(1)|liver(1)|central_nervous_system(1)|pancreas(1)	4		Acute lymphoblastic leukemia(157;0.000885)|all_hematologic(158;0.014)		LUSC - Lung squamous cell carcinoma(1;0.0387)|BRCA - Breast invasive adenocarcinoma(274;0.124)|OV - Ovarian serous cystadenocarcinoma(223;0.148)|Lung(307;0.164)	Desogestrel(DB00304)|Drospirenone(DB01395)|Dydrogesterone(DB00378)|Ethynodiol Diacetate(DB00823)|Etonogestrel(DB00294)|Levonorgestrel(DB00367)|Medroxyprogesterone(DB00603)|Megestrol(DB00351)|Mifepristone(DB00834)|Norethindrone(DB00717)|Norgestimate(DB00957)|Norgestrel(DB00506)|Progesterone(DB00396)	TTGACCTGGTGAAAAAGTGAA	0.458													31	67	---	---	---	---	PASS
MMP8	4317	broad.mit.edu	37	11	102593196	102593196	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:102593196C>T	uc001phe.2	-	2	410	c.311G>A	c.(310-312)GGA>GAA	p.G104E	MMP8_uc010rut.1_Missense_Mutation_p.G39E|MMP8_uc010ruu.1_Missense_Mutation_p.G81E	NM_002424	NP_002415	P22894	MMP8_HUMAN	matrix metalloproteinase 8 preproprotein	104					collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase activity|zinc ion binding			ovary(3)|breast(1)	4	all_cancers(8;0.00092)|all_epithelial(12;0.00389)|Lung NSC(15;0.227)	all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)	Epithelial(9;0.0555)|Lung(13;0.0828)|LUSC - Lung squamous cell carcinoma(19;0.151)|all cancers(10;0.189)	BRCA - Breast invasive adenocarcinoma(274;0.0141)		CTTGGGGTTTCCTGGGGTTAA	0.393													21	22	---	---	---	---	PASS
MMP1	4312	broad.mit.edu	37	11	102661200	102661200	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:102661200C>T	uc001phi.2	-	10	1496	c.1353G>A	c.(1351-1353)ACG>ACA	p.T451T	uc001phh.1_Intron|MMP1_uc010ruv.1_Silent_p.T385T	NM_002421	NP_002412	P03956	MMP1_HUMAN	matrix metalloproteinase 1 isoform 1	451	Hemopexin-like 4.				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)		AAATTCTCTTCGTTTTAGGAT	0.318													4	13	---	---	---	---	PASS
MMP1	4312	broad.mit.edu	37	11	102661252	102661252	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:102661252C>T	uc001phi.2	-	10	1444	c.1301G>A	c.(1300-1302)GGA>GAA	p.G434E	uc001phh.1_Intron|MMP1_uc010ruv.1_Missense_Mutation_p.G368E	NM_002421	NP_002412	P03956	MMP1_HUMAN	matrix metalloproteinase 1 isoform 1	434	Hemopexin-like 4.				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)		ATAGAAAAATCCTAGAAACAA	0.323													8	11	---	---	---	---	PASS
MMP3	4314	broad.mit.edu	37	11	102713525	102713525	+	Silent	SNP	C	A	A	rs149147183	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:102713525C>A	uc001phj.1	-	2	293	c.228G>T	c.(226-228)ACG>ACT	p.T76T		NM_002422	NP_002413	P08254	MMP3_HUMAN	matrix metalloproteinase 3 preproprotein	76					collagen catabolic process|proteolysis	extracellular space|proteinaceous extracellular matrix	calcium ion binding|metalloendopeptidase activity|zinc ion binding			lung(1)|kidney(1)	2		all_hematologic(158;0.00092)|Acute lymphoblastic leukemia(157;0.000967)		BRCA - Breast invasive adenocarcinoma(274;0.0142)	Marimastat(DB00786)|Simvastatin(DB00641)	CCAGCTTCCCCGTCACCTCCA	0.488													3	21	---	---	---	---	PASS
DYNC2H1	79659	broad.mit.edu	37	11	103107179	103107179	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:103107179C>T	uc001pho.2	+	63	9874	c.9730C>T	c.(9730-9732)CTT>TTT	p.L3244F	DYNC2H1_uc001phn.1_Missense_Mutation_p.L3244F|DYNC2H1_uc009yxe.1_Intron	NM_001080463	NP_001073932	Q8NCM8	DYHC2_HUMAN	dynein, cytoplasmic 2, heavy chain 1	3244	AAA 5 (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)		GAGGAGATTTCTTTGTACTGA	0.333													11	36	---	---	---	---	PASS
DDI1	414301	broad.mit.edu	37	11	103908634	103908634	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:103908634C>T	uc001phr.2	+	1	1327	c.1084C>T	c.(1084-1086)CCT>TCT	p.P362S	PDGFD_uc001php.2_Intron|PDGFD_uc001phq.2_Intron	NM_001001711	NP_001001711	Q8WTU0	DDI1_HUMAN	DDI1, DNA-damage inducible 1, homolog 1	362					proteolysis		aspartic-type endopeptidase activity			large_intestine(3)|upper_aerodigestive_tract(1)|pancreas(1)	5		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.00648)|Melanoma(852;0.055)|all_neural(303;0.164)		BRCA - Breast invasive adenocarcinoma(274;0.00128)|Epithelial(105;0.0631)|all cancers(92;0.169)		TTATTTTCTTCCTGAGGGAGA	0.463													20	18	---	---	---	---	PASS
CASP4	837	broad.mit.edu	37	11	104820346	104820346	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:104820346G>A	uc001pid.1	-	5	778	c.705C>T	c.(703-705)TTC>TTT	p.F235F	CASP4_uc001pib.1_Silent_p.F179F|CASP4_uc009yxg.1_Silent_p.F144F|CASP4_uc010rux.1_Silent_p.F235F	NM_001225	NP_001216	P49662	CASP4_HUMAN	caspase 4 isoform alpha precursor	235					apoptosis|induction of apoptosis|proteolysis	intracellular	cysteine-type endopeptidase activity|protein binding			lung(2)|ovary(1)|skin(1)	4		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Melanoma(852;0.0047)		BRCA - Breast invasive adenocarcinoma(274;0.000854)|Epithelial(105;0.00879)|all cancers(92;0.0357)		TGAATATCTGGAAGATGGTGT	0.483													22	68	---	---	---	---	PASS
ELMOD1	55531	broad.mit.edu	37	11	107501162	107501162	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:107501162C>T	uc010rvs.1	+	3	441	c.37C>T	c.(37-39)CTG>TTG	p.L13L	ELMOD1_uc001pjm.2_Silent_p.L13L|ELMOD1_uc010rvt.1_Silent_p.L7L	NM_018712	NP_061182	Q8N336	ELMD1_HUMAN	ELMO/CED-12 domain containing 1 isoform 1	13					phagocytosis	cytoskeleton	GTPase activator activity				0		Melanoma(852;0.000288)|Acute lymphoblastic leukemia(157;0.000966)|all_hematologic(158;0.00301)|all_epithelial(67;0.00304)|Breast(348;0.104)		BRCA - Breast invasive adenocarcinoma(274;3.4e-05)|Epithelial(105;0.00027)|all cancers(92;0.00481)		CCAGGTATGCCTGTATTTTTA	0.413													6	12	---	---	---	---	PASS
EXPH5	23086	broad.mit.edu	37	11	108385421	108385421	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:108385421G>A	uc001pkk.2	-	6	924	c.813C>T	c.(811-813)ATC>ATT	p.I271I	EXPH5_uc010rvy.1_Silent_p.I83I|EXPH5_uc010rvz.1_Silent_p.I115I|EXPH5_uc010rwa.1_Silent_p.I195I	NM_015065	NP_055880	Q8NEV8	EXPH5_HUMAN	exophilin 5 isoform a	271					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)		GGATGTCATAGATAGACATAT	0.388													20	33	---	---	---	---	PASS
ARHGAP20	57569	broad.mit.edu	37	11	110450853	110450853	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:110450853G>A	uc001pkz.1	-	16	3102	c.2817C>T	c.(2815-2817)TCC>TCT	p.S939S	ARHGAP20_uc001pky.1_Silent_p.S916S|ARHGAP20_uc009yyb.1_Silent_p.S903S|ARHGAP20_uc001pla.1_Silent_p.S903S|ARHGAP20_uc001plb.2_Silent_p.S482S	NM_020809	NP_065860	Q9P2F6	RHG20_HUMAN	Rho GTPase activating protein 20	939	Ser-rich.				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)		TGCCTGGGGAGGATAAGCTGG	0.488													22	34	---	---	---	---	PASS
C11orf53	341032	broad.mit.edu	37	11	111156674	111156674	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:111156674C>T	uc001plc.2	+	4	753	c.606C>T	c.(604-606)TCC>TCT	p.S202S		NM_198498	NP_940900	Q8IXP5	CK053_HUMAN	hypothetical protein LOC341032	202											0		all_cancers(61;2.05e-09)|Melanoma(852;4.04e-05)|all_epithelial(67;6.15e-05)|all_hematologic(158;0.000826)|Acute lymphoblastic leukemia(157;0.000966)|all_neural(223;0.0332)|Medulloblastoma(222;0.0425)|Breast(348;0.147)		Epithelial(105;1.7e-06)|BRCA - Breast invasive adenocarcinoma(274;3.16e-06)|all cancers(92;2.88e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.0507)		GGCCACTCTCCCCAGATGAGG	0.582													28	44	---	---	---	---	PASS
FDXACB1	91893	broad.mit.edu	37	11	111746473	111746473	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:111746473A>T	uc001pmc.3	-	5	1345	c.1048T>A	c.(1048-1050)TCT>ACT	p.S350T	ALG9_uc010rwo.1_Intron|FDXACB1_uc009yyi.2_Missense_Mutation_p.S201T	NM_138378	NP_612387	Q9BRP7	FDXA1_HUMAN	ferredoxin-fold anticodon binding domain	350					phenylalanyl-tRNA aminoacylation|tRNA processing		ATP binding|magnesium ion binding|phenylalanine-tRNA ligase activity|tRNA binding				0						ACTAGGAGAGAAGGTCTAAGG	0.468													19	85	---	---	---	---	PASS
HTR3B	9177	broad.mit.edu	37	11	113813828	113813828	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:113813828A>G	uc001pok.2	+	7	888	c.821A>G	c.(820-822)AAG>AGG	p.K274R	HTR3B_uc001pol.2_Missense_Mutation_p.K263R	NM_006028	NP_006019	O95264	5HT3B_HUMAN	5-hydroxytryptamine (serotonin) receptor 3B	274	Helical; Name=2; (Potential).				synaptic transmission	integral to plasma membrane|postsynaptic membrane	serotonin receptor activity|serotonin-activated cation-selective channel activity				0		all_cancers(61;6.81e-18)|all_epithelial(67;6.67e-11)|all_hematologic(158;4.67e-05)|Melanoma(852;0.000316)|Acute lymphoblastic leukemia(157;0.000976)|Breast(348;0.0101)|Prostate(24;0.0154)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)		BRCA - Breast invasive adenocarcinoma(274;3.04e-06)|Epithelial(105;1.98e-05)|all cancers(92;0.000201)|OV - Ovarian serous cystadenocarcinoma(223;0.151)		ATTGTGTTCAAGACCAGTGTG	0.567													10	13	---	---	---	---	PASS
FAM55D	54827	broad.mit.edu	37	11	114453751	114453751	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:114453751G>A	uc001ppc.2	-						FAM55D_uc001ppd.2_Intron	NM_001077639	NP_001071107	Q6UWF7	FA55D_HUMAN	hypothetical protein LOC54827 isoform 1							extracellular region				ovary(2)|skin(2)	4		all_cancers(61;8.53e-16)|all_epithelial(67;1.71e-08)|all_hematologic(158;3.05e-05)|Melanoma(852;0.000902)|Acute lymphoblastic leukemia(157;0.000967)|Breast(348;0.0194)|all_neural(223;0.0281)|Medulloblastoma(222;0.0425)|Prostate(24;0.0906)		BRCA - Breast invasive adenocarcinoma(274;2.82e-06)|Epithelial(105;0.000129)|all cancers(92;0.000938)		AACCTGAAATGACAGCAAATG	0.363													22	75	---	---	---	---	PASS
BUD13	84811	broad.mit.edu	37	11	116619214	116619214	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:116619214C>T	uc001ppn.2	-	10	1878	c.1844G>A	c.(1843-1845)AGT>AAT	p.S615N	BUD13_uc001ppo.2_Missense_Mutation_p.S481N	NM_032725	NP_116114	Q9BRD0	BUD13_HUMAN	BUD13 homolog isoform 1	615										large_intestine(1)|pancreas(1)	2	all_hematologic(175;0.0487)	all_cancers(61;1.72e-06)|all_epithelial(67;0.000735)|Melanoma(852;0.022)|Acute lymphoblastic leukemia(157;0.0255)|Medulloblastoma(222;0.0523)|Breast(348;0.056)|all_hematologic(158;0.0588)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|Epithelial(105;5.81e-06)|all cancers(92;0.000144)|OV - Ovarian serous cystadenocarcinoma(223;0.154)		ATCCTCAACACTCCATTTGTA	0.493													6	31	---	---	---	---	PASS
ZNF259	8882	broad.mit.edu	37	11	116655826	116655826	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:116655826G>A	uc001ppp.2	-	7	775	c.742C>T	c.(742-744)CTC>TTC	p.L248F	ZNF259_uc009yzd.2_Missense_Mutation_p.L248F|ZNF259_uc001ppq.2_Intron	NM_003904	NP_003895	O75312	ZPR1_HUMAN	zinc finger protein 259	248					cell proliferation|signal transduction	cytoplasm|nucleolus					0	all_hematologic(175;0.0487)	all_cancers(61;1.72e-06)|all_epithelial(67;0.000735)|Melanoma(852;0.022)|Acute lymphoblastic leukemia(157;0.0255)|Medulloblastoma(222;0.0523)|Breast(348;0.056)|all_hematologic(158;0.0588)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|Epithelial(105;5.61e-06)|all cancers(92;0.000139)|OV - Ovarian serous cystadenocarcinoma(223;0.153)		TCATTTCTGAGATCTTCCTCT	0.498													35	53	---	---	---	---	PASS
SIK3	23387	broad.mit.edu	37	11	116729286	116729286	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:116729286G>A	uc001ppy.2	-	20	2613	c.2577C>T	c.(2575-2577)ACC>ACT	p.T859T	SIK3_uc001ppz.2_Intron|SIK3_uc001pqa.2_Intron|SIK3_uc001ppw.2_Intron|SIK3_uc001ppx.2_Intron|SIK3_uc001pqb.2_Silent_p.T162T	NM_025164	NP_079440	Q9Y2K2	SIK3_HUMAN	serine/threonine-protein kinase QSK	859	Gln-rich.					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						TCAGGGCTTGGGTTGGAGAGA	0.597													17	46	---	---	---	---	PASS
CEP164	22897	broad.mit.edu	37	11	117253651	117253651	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:117253651C>T	uc001prc.2	+	14	1864	c.1717C>T	c.(1717-1719)CCA>TCA	p.P573S	CEP164_uc001prb.2_Missense_Mutation_p.P576S|CEP164_uc010rxk.1_Missense_Mutation_p.P547S|CEP164_uc001prf.2_RNA|CEP164_uc009yzp.1_RNA|CEP164_uc001prg.1_5'Flank	NM_014956	NP_055771	Q9UPV0	CE164_HUMAN	centrosomal protein 164kDa	573	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)		GCCAGTCTCTCCAGAGGTGTA	0.632													6	6	---	---	---	---	PASS
CEP164	22897	broad.mit.edu	37	11	117280365	117280365	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:117280365G>A	uc001prc.2	+	30	3927	c.3780G>A	c.(3778-3780)AAG>AAA	p.K1260K	CEP164_uc001prb.2_Silent_p.K1255K|CEP164_uc001prf.2_Intron|CEP164_uc009yzp.1_RNA|CEP164_uc001prg.1_Silent_p.K685K	NM_014956	NP_055771	Q9UPV0	CE164_HUMAN	centrosomal protein 164kDa	1260					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)		CCTCCCGCAAGATCCACGGGC	0.617													30	41	---	---	---	---	PASS
DSCAML1	57453	broad.mit.edu	37	11	117306409	117306409	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:117306409G>A	uc001prh.1	-	27	5009	c.5007C>T	c.(5005-5007)CTC>CTT	p.L1669L		NM_020693	NP_065744	Q8TD84	DSCL1_HUMAN	Down syndrome cell adhesion molecule like 1	1609	Helical; (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)		GTACGATGAAGAGCAGTGCCA	0.582													15	18	---	---	---	---	PASS
UBE4A	9354	broad.mit.edu	37	11	118235859	118235859	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:118235859C>T	uc001psw.2	+	2	193	c.64C>T	c.(64-66)CTG>TTG	p.L22L	UBE4A_uc001psv.2_Silent_p.L22L	NM_004788	NP_004779	Q14139	UBE4A_HUMAN	ubiquitination factor E4A	22					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)		TTTTGGCTCCCTGGCTGATGC	0.453													12	30	---	---	---	---	PASS
MLL	4297	broad.mit.edu	37	11	118370147	118370147	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:118370147C>T	uc001pta.2	+						MLL_uc001ptb.2_Intron	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia						apoptosis|embryonic hemopoiesis|histone H4-K16 acetylation|positive regulation of transcription, DNA-dependent|protein complex assembly|transcription from RNA polymerase II promoter	MLL1 complex	AT DNA binding|histone acetyl-lysine binding|histone methyltransferase activity (H3-K4 specific)|protein homodimerization activity|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|unmethylated CpG binding|zinc ion binding			lung(7)|ovary(5)|kidney(5)|central_nervous_system(3)|pancreas(2)|urinary_tract(1)|breast(1)|skin(1)	25	all_hematologic(175;0.046)	all_hematologic(192;1.13e-50)|all_neural(223;3.18e-06)|Breast(348;1.07e-05)|Medulloblastoma(222;0.0425)|Hepatocellular(160;0.244)		OV - Ovarian serous cystadenocarcinoma(223;2.77e-44)|BRCA - Breast invasive adenocarcinoma(274;1.2e-11)|Lung(307;3.48e-06)|LUSC - Lung squamous cell carcinoma(976;7.92e-05)|Colorectal(284;0.144)		TATGACCTAGCCTTGGTTATT	0.348			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								21	38	---	---	---	---	PASS
MLL	4297	broad.mit.edu	37	11	118376855	118376855	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:118376855G>A	uc001pta.2	+	27	10262	c.10239G>A	c.(10237-10239)CAG>CAA	p.Q3413Q	MLL_uc001ptb.2_Silent_p.Q3416Q	NM_005933	NP_005924	Q03164	MLL1_HUMAN	myeloid/lymphoid or mixed-lineage leukemia	3413					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)		GGACATCACAGACCCCCTCTA	0.537			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								20	68	---	---	---	---	PASS
BCL9L	283149	broad.mit.edu	37	11	118769513	118769513	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:118769513G>C	uc001pug.2	-	8	5076	c.4111C>G	c.(4111-4113)CCC>GCC	p.P1371A	BCL9L_uc009zal.2_Missense_Mutation_p.P1366A	NM_182557	NP_872363	Q86UU0	BCL9L_HUMAN	B-cell CLL/lymphoma 9-like	1371	Pro-rich.				negative regulation of transforming growth factor beta receptor signaling pathway|positive regulation of epithelial to mesenchymal transition|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		transcription coactivator activity			ovary(1)|pancreas(1)	2	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_hematologic(192;0.103)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.66e-05)		GGCCGAGAGGGAGTCTGCTCC	0.627													7	18	---	---	---	---	PASS
HYOU1	10525	broad.mit.edu	37	11	118923096	118923096	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:118923096G>A	uc001puu.2	-	10	1226	c.1033C>T	c.(1033-1035)CGT>TGT	p.R345C	HYOU1_uc001put.2_Missense_Mutation_p.R310C|HYOU1_uc010ryu.1_Missense_Mutation_p.R365C|HYOU1_uc010ryv.1_Missense_Mutation_p.R234C|HYOU1_uc001pux.3_Missense_Mutation_p.R345C|HYOU1_uc010ryw.1_RNA|HYOU1_uc001puw.1_Missense_Mutation_p.R345C	NM_006389	NP_006380	Q9Y4L1	HYOU1_HUMAN	hypoxia up-regulated 1 precursor	345						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)		AATTCCACACGAGTCACTTTT	0.557													41	56	---	---	---	---	PASS
VPS11	55823	broad.mit.edu	37	11	118951947	118951947	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:118951947C>T	uc010ryx.1	+	16	2626	c.2584C>T	c.(2584-2586)CCT>TCT	p.P862S	VPS11_uc010ryy.1_Missense_Mutation_p.P708S	NM_021729	NP_068375	Q9H270	VPS11_HUMAN	vacuolar protein sorting 11	862					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)		CACCTGCCTCCCTGAAAACCG	0.542													25	55	---	---	---	---	PASS
HINFP	25988	broad.mit.edu	37	11	119003908	119003908	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:119003908C>T	uc001pvp.2	+	10	1307	c.1118C>T	c.(1117-1119)CCC>CTC	p.P373L	HINFP_uc001pvq.2_Missense_Mutation_p.P373L|HINFP_uc001pvr.2_Missense_Mutation_p.P126L	NM_015517	NP_056332	Q9BQA5	HINFP_HUMAN	MBD2 (methyl-CpG-binding protein)-interacting	373	Interaction with NPAT.				DNA damage checkpoint|DNA repair|establishment of protein localization|in utero embryonic development|myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of transcription, DNA-dependent|regulation of transcription involved in G1/S phase of mitotic cell cycle	Cajal body	enzyme binding|histone binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription regulatory region DNA binding|zinc ion binding			pancreas(2)|ovary(1)|skin(1)	4						TTCAAGTGGCCCTCAGGGCAT	0.463													24	59	---	---	---	---	PASS
ABCG4	64137	broad.mit.edu	37	11	119027733	119027733	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:119027733G>A	uc001pvs.2	+						ABCG4_uc009zar.2_Intron	NM_022169	NP_071452	Q9H172	ABCG4_HUMAN	ATP-binding cassette, subfamily G, member 4						cholesterol efflux	integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)	2	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.7e-05)		CGGTGAGTAGGGGTGGAGAGG	0.607													9	53	---	---	---	---	PASS
ABCG4	64137	broad.mit.edu	37	11	119031280	119031280	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:119031280C>T	uc001pvs.2	+	14	1965	c.1629C>T	c.(1627-1629)ATC>ATT	p.I543I	ABCG4_uc009zar.2_Silent_p.I543I	NM_022169	NP_071452	Q9H172	ABCG4_HUMAN	ATP-binding cassette, subfamily G, member 4	543	ABC transmembrane type-2.|Helical; Name=5; (Potential).				cholesterol efflux	integral to membrane	ATP binding|ATPase activity|protein heterodimerization activity|protein homodimerization activity			ovary(2)	2	all_hematologic(175;0.0977)	Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;7.7e-05)		TTACCGCCATCCCTGTCCTCT	0.567													56	88	---	---	---	---	PASS
CCDC153	283152	broad.mit.edu	37	11	119063871	119063871	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:119063871C>T	uc010rze.1	-	5	427	c.339G>A	c.(337-339)CGG>CGA	p.R113R		NM_001145018	NP_001138490	Q494R4	CC153_HUMAN	coiled-coil domain containing 153	113	Potential.										0						CTAGCTGCCCCCGAAGGCCTT	0.592													8	29	---	---	---	---	PASS
CBL	867	broad.mit.edu	37	11	119155697	119155697	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:119155697C>T	uc001pwe.2	+	10	1588	c.1450C>T	c.(1450-1452)CCA>TCA	p.P484S		NM_005188	NP_005179	P22681	CBL_HUMAN	Cas-Br-M (murine) ecotropic retroviral	484	Pro-rich.				epidermal growth factor receptor signaling pathway|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of receptor-mediated endocytosis	cytosol|nucleus	calcium ion binding|sequence-specific DNA binding transcription factor activity|SH3 domain binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(135)|lung(10)|central_nervous_system(2)|ovary(1)|breast(1)	149		Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.92e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.000784)		GCCGCCTTCTCCATTCTCCAT	0.512									CBL_gene-associated_Juvenile_Myelomonocytic_Leukemia_and_Developmental_Anomalies|Noonan_syndrome		OREG0021401	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	20	34	---	---	---	---	PASS
TRIM29	23650	broad.mit.edu	37	11	119996472	119996472	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:119996472G>A	uc001pwz.2	-	4	1384	c.1260C>T	c.(1258-1260)TGC>TGT	p.C420C	TRIM29_uc001pwy.2_5'Flank|TRIM29_uc010rzi.1_Silent_p.C159C|TRIM29_uc010rzj.1_Silent_p.C153C|TRIM29_uc001pxa.2_RNA	NM_012101	NP_036233	Q14134	TRI29_HUMAN	tripartite motif protein TRIM29	420					transcription from RNA polymerase II promoter	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|breast(1)|kidney(1)|skin(1)	4		Breast(109;0.00117)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.37e-06)		CGTGGCGCATGCATACATTGA	0.597													8	31	---	---	---	---	PASS
TRIM29	23650	broad.mit.edu	37	11	119996473	119996473	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:119996473C>A	uc001pwz.2	-	4	1383	c.1259G>T	c.(1258-1260)TGC>TTC	p.C420F	TRIM29_uc001pwy.2_5'Flank|TRIM29_uc010rzi.1_Missense_Mutation_p.C159F|TRIM29_uc010rzj.1_Missense_Mutation_p.C153F|TRIM29_uc001pxa.2_RNA	NM_012101	NP_036233	Q14134	TRI29_HUMAN	tripartite motif protein TRIM29	420					transcription from RNA polymerase II promoter	cytoplasm	protein binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|breast(1)|kidney(1)|skin(1)	4		Breast(109;0.00117)|Medulloblastoma(222;0.0425)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;5.37e-06)		GTGGCGCATGCATACATTGAG	0.592													8	30	---	---	---	---	PASS
ARHGEF12	23365	broad.mit.edu	37	11	120339988	120339988	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:120339988C>T	uc001pxl.1	+						ARHGEF12_uc009zat.2_Intron|ARHGEF12_uc010rzn.1_Intron|ARHGEF12_uc009zau.1_Intron	NM_015313	NP_056128	Q9NZN5	ARHGC_HUMAN	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)		ATTTCTTTCCCATATTTAGAA	0.333			T	MLL	AML								6	24	---	---	---	---	PASS
ARHGEF12	23365	broad.mit.edu	37	11	120347922	120347922	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:120347922C>T	uc001pxl.1	+						ARHGEF12_uc009zat.2_Intron|ARHGEF12_uc010rzn.1_Intron|ARHGEF12_uc009zau.1_Intron	NM_015313	NP_056128	Q9NZN5	ARHGC_HUMAN	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)		TTCCAACTTTCTGAAGCTGGC	0.368			T	MLL	AML								4	26	---	---	---	---	PASS
GRIK4	2900	broad.mit.edu	37	11	120823587	120823587	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:120823587C>T	uc001pxn.2	+	15	1901	c.1614C>T	c.(1612-1614)TCC>TCT	p.S538S	GRIK4_uc009zav.1_Silent_p.S538S|GRIK4_uc009zaw.1_Silent_p.S538S|GRIK4_uc009zax.1_Silent_p.S538S	NM_014619	NP_055434	Q16099	GRIK4_HUMAN	glutamate receptor KA1 precursor	538	Extracellular (Potential).				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)	GCTATTTCTCCTTCCTGGACC	0.547											OREG0021429	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	47	---	---	---	---	PASS
TBCEL	219899	broad.mit.edu	37	11	120916532	120916532	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:120916532G>A	uc009zay.2	+	2	211	c.133G>A	c.(133-135)GAT>AAT	p.D45N	TBCEL_uc001pxo.2_Missense_Mutation_p.D45N|TBCEL_uc001pxp.2_5'UTR|TBCEL_uc001pxq.2_RNA	NM_001130047	NP_001123519	Q5QJ74	TBCEL_HUMAN	tubulin folding cofactor E-like	45						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)		TCCTATGAAAGGTAAGAAAGA	0.393													10	13	---	---	---	---	PASS
TECTA	7007	broad.mit.edu	37	11	120989408	120989408	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:120989408G>A	uc010rzo.1	+	6	1184	c.1184G>A	c.(1183-1185)GGA>GAA	p.G395E		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	395	VWFD 1.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		ATCCCCAAAGGAAGCTATGGA	0.522													12	46	---	---	---	---	PASS
TECTA	7007	broad.mit.edu	37	11	121028816	121028816	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:121028816C>T	uc010rzo.1	+	13	4572	c.4572C>T	c.(4570-4572)TCC>TCT	p.S1524S		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	1524	VWFD 4.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		CCGACATCTCCTTCCAGCTTA	0.572													18	33	---	---	---	---	PASS
TECTA	7007	broad.mit.edu	37	11	121032794	121032794	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:121032794C>T	uc010rzo.1	+	15	4987	c.4987C>T	c.(4987-4989)CCC>TCC	p.P1663S		NM_005422	NP_005413	O75443	TECTA_HUMAN	tectorin alpha precursor	1663	VWFD 4.				cell-matrix adhesion|sensory perception of sound	anchored to membrane|plasma membrane|proteinaceous extracellular matrix				breast(6)|ovary(2)|skin(2)	10	all_hematologic(175;0.208)	Breast(109;0.000766)|Medulloblastoma(222;0.0427)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;8.04e-06)|OV - Ovarian serous cystadenocarcinoma(223;0.166)		ACCTCTTGCCCCCAGCTGCAA	0.507													17	61	---	---	---	---	PASS
SORL1	6653	broad.mit.edu	37	11	121403216	121403216	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:121403216G>A	uc001pxx.2	+	12	1720	c.1640G>A	c.(1639-1641)GGA>GAA	p.G547E		NM_003105	NP_003096	Q92673	SORL_HUMAN	sortilin-related receptor containing LDLR class	547	Extracellular (Potential).				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)		GACCACGGCGGAATCATCACG	0.483													17	24	---	---	---	---	PASS
BLID	414899	broad.mit.edu	37	11	121986431	121986431	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:121986431A>G	uc001pyf.2	-	1	493	c.200T>C	c.(199-201)CTT>CCT	p.L67P	LOC399959_uc009zba.2_Intron	NM_001001786	NP_001001786	Q8IZY5	BLID_HUMAN	BRCC2 protein	67					apoptosis	mitochondrion					0		Breast(109;0.0164)|Medulloblastoma(222;0.0523)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;2.08e-05)|OV - Ovarian serous cystadenocarcinoma(99;0.101)		GTACCTTTTAAGAGAAAGCAC	0.463											OREG0021435	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	45	83	---	---	---	---	PASS
GRAMD1B	57476	broad.mit.edu	37	11	123471189	123471189	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:123471189C>T	uc001pyx.2	+	7	883	c.554C>T	c.(553-555)TCG>TTG	p.S185L	GRAMD1B_uc001pyw.2_Missense_Mutation_p.S192L|GRAMD1B_uc010rzw.1_Missense_Mutation_p.S145L|GRAMD1B_uc010rzx.1_Missense_Mutation_p.S145L|GRAMD1B_uc009zbe.1_Missense_Mutation_p.S181L	NM_020716	NP_065767	Q3KR37	GRM1B_HUMAN	GRAM domain containing 1B	185						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)		TTCTTCACTTCGTTTGGGGCC	0.408													12	16	---	---	---	---	PASS
TMEM225	338661	broad.mit.edu	37	11	123756054	123756054	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:123756054C>T	uc001pzi.2	-	1	287	c.79G>A	c.(79-81)GGA>AGA	p.G27R		NM_001013743	NP_001013765	Q6GV28	TM225_HUMAN	transmembrane protein 225	27	Helical; (Potential).					integral to membrane				upper_aerodigestive_tract(1)|pancreas(1)|skin(1)	3						AAGGTGATTCCCATCACCATT	0.423													20	27	---	---	---	---	PASS
OR4D5	219875	broad.mit.edu	37	11	123810609	123810609	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:123810609G>A	uc001pzk.1	+	1	286	c.286G>A	c.(286-288)GGA>AGA	p.G96R		NM_001001965	NP_001001965	Q8NGN0	OR4D5_HUMAN	olfactory receptor, family 4, subfamily D,	96	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		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;0.0399)		TTCCTTTGGTGGATGCCTGAC	0.493													8	44	---	---	---	---	PASS
OR6T1	219874	broad.mit.edu	37	11	123814038	123814038	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:123814038C>T	uc010sab.1	-	1	508	c.508G>A	c.(508-510)GGC>AGC	p.G170S		NM_001005187	NP_001005187	Q8NGN1	OR6T1_HUMAN	olfactory receptor, family 6, subfamily T,	170	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		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;0.0401)		CCATTGGGGCCACAGAAAGGC	0.562													25	30	---	---	---	---	PASS
OR10G8	219869	broad.mit.edu	37	11	123900675	123900675	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:123900675G>A	uc001pzp.1	+	1	346	c.346G>A	c.(346-348)GTC>ATC	p.V116I		NM_001004464	NP_001004464	Q8NGN5	O10G8_HUMAN	olfactory receptor, family 10, subfamily G,	116	Helical; Name=3; (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)		CCTCTACAGGGTCATGTCCTG	0.552													41	63	---	---	---	---	PASS
VWA5A	4013	broad.mit.edu	37	11	123989018	123989018	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:123989018G>A	uc001pzu.2	+	5	578	c.369G>A	c.(367-369)GCG>GCA	p.A123A	VWA5A_uc001pzr.2_Silent_p.A123A|VWA5A_uc001pzs.2_Silent_p.A123A|VWA5A_uc010sae.1_Silent_p.A139A|VWA5A_uc001pzt.2_Silent_p.A123A	NM_001130142	NP_001123614	O00534	VMA5A_HUMAN	BCSC-1 isoform 1	123	VIT.									upper_aerodigestive_tract(1)|ovary(1)	2						GGTCGAAGGCGGCAGTCACCC	0.577													16	53	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	11	124120969	124120969	+	IGR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:124120969C>T								OR8G2 (24659 upstream) : OR8D1 (58768 downstream)																							TGATCTTCTTCCCCTCCTAAA	0.388													12	36	---	---	---	---	PASS
OR8B8	26493	broad.mit.edu	37	11	124310855	124310855	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:124310855G>A	uc010sal.1	-	1	127	c.127C>T	c.(127-129)CTG>TTG	p.L43L		NM_012378	NP_036510	Q15620	OR8B8_HUMAN	olfactory receptor, family 8, subfamily B,	43	Helical; Name=1; (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)		ATCAAGCCCAGGTTCCCCACC	0.488													29	40	---	---	---	---	PASS
OR8B12	219858	broad.mit.edu	37	11	124413056	124413056	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:124413056C>T	uc010sam.1	-	1	495	c.495G>A	c.(493-495)CTG>CTA	p.L165L		NM_001005195	NP_001005195	Q8NGG6	OR8BC_HUMAN	olfactory receptor, family 8, subfamily B,	165	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)|skin(1)	3		Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.118)|all_lung(97;0.126)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.49e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0213)		CACAGAAGGTCAGGTTCATTA	0.507													27	48	---	---	---	---	PASS
SIAE	54414	broad.mit.edu	37	11	124508525	124508525	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:124508525C>T	uc001qan.2	-	9	1346	c.1233G>A	c.(1231-1233)AAG>AAA	p.K411K		NM_170601	NP_733746	Q9HAT2	SIAE_HUMAN	sialate O-acetylesterase precursor	411						extracellular region|lysosome	carboxylesterase activity|sialate O-acetylesterase activity				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;1.63e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0243)		AGAGTTCTATCTTCTCAGGCA	0.473													13	16	---	---	---	---	PASS
SIAE	54414	broad.mit.edu	37	11	124517323	124517323	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:124517323C>T	uc001qan.2	-	7	1017	c.904G>A	c.(904-906)GAA>AAA	p.E302K		NM_170601	NP_733746	Q9HAT2	SIAE_HUMAN	sialate O-acetylesterase precursor	302						extracellular region|lysosome	carboxylesterase activity|sialate O-acetylesterase activity				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;1.63e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0243)		TGGAAGGTTTCACGCCAGTCT	0.468													18	33	---	---	---	---	PASS
SLC37A2	219855	broad.mit.edu	37	11	124947395	124947395	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:124947395C>T	uc001qbn.2	+	4	536	c.285C>T	c.(283-285)CTC>CTT	p.L95L	SLC37A2_uc010sau.1_Silent_p.L95L	NM_001145290	NP_001138762	Q8TED4	SPX2_HUMAN	solute carrier family 37 (glycerol-3-phosphate	95	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)		ACGCCTTCCTCATCGCCTATG	0.527													10	21	---	---	---	---	PASS
PKNOX2	63876	broad.mit.edu	37	11	125280123	125280123	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:125280123C>T	uc001qbu.2	+	8	934	c.620C>T	c.(619-621)TCC>TTC	p.S207F	PKNOX2_uc010saz.1_Missense_Mutation_p.S178F|PKNOX2_uc010sba.1_Missense_Mutation_p.S178F|PKNOX2_uc010sbb.1_Missense_Mutation_p.S143F|PKNOX2_uc001qbv.2_5'Flank	NM_022062	NP_071345	Q96KN3	PKNX2_HUMAN	PBX/knotted 1 homeobox 2	207						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)		AATTCCATGTCCGGAGTCTCC	0.567													28	116	---	---	---	---	PASS
STT3A	3703	broad.mit.edu	37	11	125472276	125472276	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:125472276C>T	uc001qcd.2	+	4	338	c.228C>T	c.(226-228)GCC>GCT	p.A76A	STT3A_uc009zbm.2_Silent_p.A76A|STT3A_uc001qce.2_Silent_p.A76A|STT3A_uc010sbg.1_5'UTR	NM_152713	NP_689926	P46977	STT3A_HUMAN	integral membrane protein 1	76	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	integral to membrane|oligosaccharyltransferase complex	dolichyl-diphosphooligosaccharide-protein glycotransferase activity				0	all_hematologic(175;0.228)	Breast(109;0.0115)|Medulloblastoma(222;0.0523)|Lung NSC(97;0.0919)|all_lung(97;0.0994)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;1.13e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.0996)		ATGACCGAGCCTGGTACCCTT	0.378													8	19	---	---	---	---	PASS
CDON	50937	broad.mit.edu	37	11	125880416	125880416	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:125880416G>A	uc009zbw.2	-	8	1500	c.1372C>T	c.(1372-1374)CGA>TGA	p.R458*	CDON_uc001qdc.3_Nonsense_Mutation_p.R458*|CDON_uc001qdd.3_RNA	NM_016952	NP_058648	Q4KMG0	CDON_HUMAN	surface glycoprotein, Ig superfamily member	458	Ig-like C2-type 5.|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)		TGTGATTTTCGGGATTTCGAT	0.522													33	46	---	---	---	---	PASS
KIRREL3	84623	broad.mit.edu	37	11	126333112	126333112	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:126333112G>A	uc001qea.2	-	6	1043	c.682C>T	c.(682-684)CGT>TGT	p.R228C	KIRREL3_uc001qeb.2_Missense_Mutation_p.R228C|KIRREL3_uc001qec.1_Missense_Mutation_p.R228C	NM_032531	NP_115920	Q8IZU9	KIRR3_HUMAN	kin of IRRE like 3 isoform 1	228	Ig-like C2-type 2.|Extracellular (Potential).				hemopoiesis	extracellular region|integral to membrane|plasma membrane	protein binding			ovary(3)	3	all_hematologic(175;0.145)	Lung NSC(97;0.0484)|all_lung(97;0.0522)|Medulloblastoma(222;0.0523)|Breast(109;0.0949)|all_neural(223;0.224)		BRCA - Breast invasive adenocarcinoma(274;6.03e-06)|OV - Ovarian serous cystadenocarcinoma(99;0.12)		TTGGTGGCACGACACACGATG	0.622													7	25	---	---	---	---	PASS
KCNJ5	3762	broad.mit.edu	37	11	128781486	128781486	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:128781486C>T	uc001qet.2	+	2	632	c.318C>T	c.(316-318)TTC>TTT	p.F106F	KCNJ5_uc009zck.2_Silent_p.F106F|KCNJ5_uc001qew.2_Silent_p.F106F	NM_000890	NP_000881	P48544	IRK5_HUMAN	potassium inwardly-rectifying channel J5	106	Helical; Name=M1; (By similarity).				synaptic transmission	voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			skin(1)	1	all_hematologic(175;0.0641)	Lung NSC(97;0.00038)|all_lung(97;0.000817)|Breast(109;0.00123)|Medulloblastoma(222;0.0425)|all_neural(223;0.0837)		OV - Ovarian serous cystadenocarcinoma(99;0.0059)|LUSC - Lung squamous cell carcinoma(976;0.021)|Lung(977;0.0215)	Glibenclamide(DB01016)	TCTTCGGCTTCATTTGGTGGC	0.527													16	46	---	---	---	---	PASS
ARHGAP32	9743	broad.mit.edu	37	11	128839068	128839068	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:128839068C>T	uc009zcp.2	-	22	5998	c.5998G>A	c.(5998-6000)GAC>AAC	p.D2000N	ARHGAP32_uc009zcq.1_3'UTR|ARHGAP32_uc009zco.2_Missense_Mutation_p.D959N|ARHGAP32_uc001qez.2_Missense_Mutation_p.D1651N	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	2000	Interaction with FYN.				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						ACACTGGGGTCCCTCTCCACG	0.537													28	35	---	---	---	---	PASS
ARHGAP32	9743	broad.mit.edu	37	11	128839539	128839539	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:128839539C>T	uc009zcp.2	-	22	5527	c.5527G>A	c.(5527-5529)GGA>AGA	p.G1843R	ARHGAP32_uc009zcq.1_3'UTR|ARHGAP32_uc009zco.2_Missense_Mutation_p.G802R|ARHGAP32_uc001qez.2_Missense_Mutation_p.G1494R	NM_001142685	NP_001136157	A7KAX9	RHG32_HUMAN	Rho GTPase-activating protein isoform 1	1843	Interaction with FYN.				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						CCATGGCCTCCGTGATGGTGG	0.612													10	18	---	---	---	---	PASS
BARX2	8538	broad.mit.edu	37	11	129321220	129321220	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:129321220C>T	uc001qfc.3	+	4	813	c.763C>T	c.(763-765)CCC>TCC	p.P255S		NM_003658	NP_003649	Q9UMQ3	BARX2_HUMAN	BarH-like homeobox 2	255											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)		ACGTGATGTCCCCTTAGAGAT	0.567													14	36	---	---	---	---	PASS
PRDM10	56980	broad.mit.edu	37	11	129812365	129812365	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:129812365A>G	uc001qfm.2	-	7	1154	c.922T>C	c.(922-924)TAT>CAT	p.Y308H	PRDM10_uc001qfj.2_Missense_Mutation_p.Y222H|PRDM10_uc001qfk.2_Missense_Mutation_p.Y222H|PRDM10_uc001qfl.2_Missense_Mutation_p.Y222H|PRDM10_uc010sbx.1_Missense_Mutation_p.Y222H|PRDM10_uc001qfn.2_Missense_Mutation_p.Y308H|PRDM10_uc009zct.1_Missense_Mutation_p.Y340H	NM_020228	NP_064613	Q9NQV6	PRD10_HUMAN	PR domain containing 10 isoform 1	308	SET.				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)		GTTGTATAATACACATGGTGG	0.488													13	41	---	---	---	---	PASS
OPCML	4978	broad.mit.edu	37	11	132306678	132306678	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:132306678G>A	uc001qgs.2	-						OPCML_uc001qgu.2_Intron|OPCML_uc010sck.1_Intron|OPCML_uc001qgt.2_Intron|OPCML_uc010scl.1_Intron	NM_002545	NP_002536	Q14982	OPCM_HUMAN	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)		GAGGATCTGTGGGAAacacac	0.378													12	12	---	---	---	---	PASS
IGSF9B	22997	broad.mit.edu	37	11	133795713	133795713	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:133795713C>A	uc001qgx.3	-	14	2186	c.1955G>T	c.(1954-1956)CGT>CTT	p.R652L	IGSF9B_uc001qgy.1_Missense_Mutation_p.R494L	NM_014987	NP_055802	Q9UPX0	TUTLB_HUMAN	immunoglobulin superfamily, member 9B	652	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)		CTCTGCGACACGGAACTCCAT	0.587													7	18	---	---	---	---	PASS
GLB1L3	112937	broad.mit.edu	37	11	134158771	134158771	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:134158771C>A	uc009zdf.2	+	7	1076	c.716C>A	c.(715-717)CCG>CAG	p.P239Q	GLB1L3_uc010scs.1_Missense_Mutation_p.P239Q|GLB1L3_uc010sct.1_Missense_Mutation_p.P91Q	NM_001080407	NP_001073876	Q8NCI6	GLBL3_HUMAN	galactosidase, beta 1 like 3	239					carbohydrate metabolic process		cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			pancreas(1)	1	all_hematologic(175;0.127)	all_cancers(12;5.52e-23)|all_epithelial(12;2.15e-16)|all_lung(97;1.19e-05)|Lung NSC(97;2.76e-05)|Breast(109;0.000162)|all_neural(223;0.0182)|Medulloblastoma(222;0.0208)|Esophageal squamous(93;0.0559)		Epithelial(10;1.3e-11)|all cancers(11;2.07e-10)|BRCA - Breast invasive adenocarcinoma(10;3.09e-10)|OV - Ovarian serous cystadenocarcinoma(99;0.000873)|Lung(977;0.222)		ACATACATGCCGTATCTCCAC	0.512													3	23	---	---	---	---	PASS
GLB1L2	89944	broad.mit.edu	37	11	134240229	134240229	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:134240229C>A	uc001qhp.2	+	12	1339	c.1151C>A	c.(1150-1152)CCG>CAG	p.P384Q	GLB1L2_uc009zdg.1_RNA	NM_138342	NP_612351	Q8IW92	GLBL2_HUMAN	galactosidase, beta 1-like 2 precursor	384					carbohydrate metabolic process	extracellular region	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds	p.P384S(1)		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)		CCCAAGATGCCGTATGAGCCC	0.592													5	124	---	---	---	---	PASS
B3GAT1	27087	broad.mit.edu	37	11	134252596	134252596	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:134252596G>A	uc001qhq.2	-						B3GAT1_uc001qhr.2_Intron|B3GAT1_uc010scv.1_Intron	NM_018644	NP_061114	Q9P2W7	B3GA1_HUMAN	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)		TTCTGCGGAGGGTCTCACCTT	0.557													4	33	---	---	---	---	PASS
KDM5A	5927	broad.mit.edu	37	12	422369	422369	+	Intron	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:422369A>T	uc001qif.1	-						KDM5A_uc001qie.1_Intron|KDM5A_uc010sdn.1_Intron	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	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						GTCTAAAAGAACAATAAAAAC	0.269			T 	NUP98	AML								13	21	---	---	---	---	PASS
KDM5A	5927	broad.mit.edu	37	12	475235	475235	+	Silent	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:475235G>T	uc001qif.1	-	4	765	c.402C>A	c.(400-402)ACC>ACA	p.T134T	KDM5A_uc001qie.1_Silent_p.T134T|KDM5A_uc010sdn.1_Silent_p.T93T|KDM5A_uc010sdo.1_Intron	NM_001042603	NP_001036068	P29375	KDM5A_HUMAN	retinoblastoma binding protein 2 isoform 1	134	ARID.				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						TCTTCTCTTTGGTGACCATTT	0.388			T 	NUP98	AML								7	249	---	---	---	---	PASS
WNT5B	81029	broad.mit.edu	37	12	1749040	1749040	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:1749040G>A	uc009zdq.2	+	4	761	c.519G>A	c.(517-519)AAG>AAA	p.K173K	WNT5B_uc001qjj.2_Silent_p.K173K|WNT5B_uc001qjk.2_Silent_p.K173K|WNT5B_uc001qjl.2_Silent_p.K173K	NM_032642	NP_116031	Q9H1J7	WNT5B_HUMAN	wingless-type MMTV integration site family,	173					angiogenesis|anterior/posterior pattern formation|cell migration involved in gastrulation|cellular response to retinoic acid|chondrocyte differentiation|convergent extension involved in axis elongation|convergent extension involved in gastrulation|dorsal/ventral axis specification|endocrine pancreas development|fat cell differentiation|lens fiber cell development|negative regulation of canonical Wnt receptor signaling pathway|neuron differentiation|positive regulation of cell migration|positive regulation of fat cell differentiation|respiratory system development|Wnt receptor signaling pathway, calcium modulating pathway	extracellular space|plasma membrane|proteinaceous extracellular matrix	frizzled-2 binding			skin(1)	1	Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.00109)			GCTTCGCCAAGGAGTTTGTGG	0.657													3	9	---	---	---	---	PASS
ADIPOR2	79602	broad.mit.edu	37	12	1889730	1889730	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:1889730C>T	uc001qjm.2	+	5	774	c.577C>T	c.(577-579)CTC>TTC	p.L193F	ADIPOR2_uc001qjn.2_Missense_Mutation_p.L193F	NM_024551	NP_078827	Q86V24	ADR2_HUMAN	adiponectin receptor 2	193	Helical; Name=2; (Potential).				fatty acid oxidation|hormone-mediated signaling pathway	integral to membrane	hormone binding|receptor activity				0	Ovarian(42;0.107)		OV - Ovarian serous cystadenocarcinoma(31;0.000382)			AGGAGCCATTCTCTGCCTTTC	0.458													30	68	---	---	---	---	PASS
CACNA2D4	93589	broad.mit.edu	37	12	2022270	2022270	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:2022270C>T	uc001qjp.2	-	3	576	c.345G>A	c.(343-345)GAG>GAA	p.E115E	CACNA2D4_uc009zds.1_RNA|CACNA2D4_uc009zdt.1_Silent_p.E115E	NM_172364	NP_758952	Q7Z3S7	CA2D4_HUMAN	voltage-gated calcium channel alpha(2)delta-4	115	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)		CATCCACCTCCTCGATCTTCA	0.532													13	21	---	---	---	---	PASS
DCP1B	196513	broad.mit.edu	37	12	2062288	2062288	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:2062288G>A	uc001qjx.1	-	7	898	c.818C>T	c.(817-819)TCC>TTC	p.S273F	DCP1B_uc010sdy.1_Missense_Mutation_p.S171F	NM_152640	NP_689853	Q8IZD4	DCP1B_HUMAN	decapping enzyme Dcp1b	273					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)			ATAGGACAGGGAGCGTACAAC	0.478													10	19	---	---	---	---	PASS
CACNA1C	775	broad.mit.edu	37	12	2602441	2602441	+	Silent	SNP	C	A	A	rs112002520		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:2602441C>A	uc009zdu.1	+	7	1315	c.1002C>A	c.(1000-1002)CCC>CCA	p.P334P	CACNA1C_uc009zdv.1_Silent_p.P331P|CACNA1C_uc001qkb.2_Silent_p.P334P|CACNA1C_uc001qkc.2_Silent_p.P334P|CACNA1C_uc001qke.2_Silent_p.P334P|CACNA1C_uc001qkf.2_Silent_p.P334P|CACNA1C_uc001qjz.2_Silent_p.P334P|CACNA1C_uc001qkd.2_Silent_p.P334P|CACNA1C_uc001qkg.2_Silent_p.P334P|CACNA1C_uc009zdw.1_Silent_p.P334P|CACNA1C_uc001qkh.2_Silent_p.P334P|CACNA1C_uc001qkl.2_Silent_p.P334P|CACNA1C_uc001qkn.2_Silent_p.P334P|CACNA1C_uc001qko.2_Silent_p.P334P|CACNA1C_uc001qkp.2_Silent_p.P334P|CACNA1C_uc001qkr.2_Silent_p.P334P|CACNA1C_uc001qku.2_Silent_p.P334P|CACNA1C_uc001qkq.2_Silent_p.P334P|CACNA1C_uc001qks.2_Silent_p.P334P|CACNA1C_uc001qkt.2_Silent_p.P334P|CACNA1C_uc001qka.1_5'UTR|CACNA1C_uc001qki.1_Silent_p.P70P|CACNA1C_uc001qkj.1_Silent_p.P70P|CACNA1C_uc001qkk.1_Silent_p.P70P|CACNA1C_uc001qkm.1_Silent_p.P70P	NM_199460	NP_955630	Q13936	CAC1C_HUMAN	calcium channel, voltage-dependent, L type,	334	I.|Extracellular (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)	TGTGCAAGCCCGGCTGGGATG	0.602													5	110	---	---	---	---	PASS
KCNA1	3736	broad.mit.edu	37	12	5021808	5021808	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:5021808G>A	uc001qnh.2	+	2	2369	c.1264G>A	c.(1264-1266)GAA>AAA	p.E422K		NM_000217	NP_000208	Q09470	KCNA1_HUMAN	potassium voltage-gated channel subfamily A	422					synaptic transmission	juxtaparanode region of axon|voltage-gated potassium channel complex	delayed rectifier potassium channel activity|potassium ion transmembrane transporter activity			ovary(1)|skin(1)	2					Desflurane(DB01189)|Enflurane(DB00228)|Isoflurane(DB00753)|Methoxyflurane(DB01028)|Sevoflurane(DB01236)	AACTGAGGGGGAAGAGCAGGC	0.522													80	205	---	---	---	---	PASS
KCNA5	3741	broad.mit.edu	37	12	5153901	5153901	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:5153901C>T	uc001qni.2	+	1	817	c.588C>T	c.(586-588)TTC>TTT	p.F196F		NM_002234	NP_002225	P22460	KCNA5_HUMAN	potassium voltage-gated channel, shaker-related	196						Golgi apparatus|voltage-gated potassium channel complex	delayed rectifier potassium channel activity			ovary(2)|breast(2)	4						TGGACGTGTTCGCGGACGAGA	0.632													14	32	---	---	---	---	PASS
NTF3	4908	broad.mit.edu	37	12	5603968	5603968	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:5603968G>A	uc001qnl.3	+	1	671	c.588G>A	c.(586-588)AAG>AAA	p.K196K	NTF3_uc001qnk.3_Silent_p.K209K	NM_002527	NP_002518	P20783	NTF3_HUMAN	neurotrophin 3 isoform 2 preproprotein	196					signal transduction	extracellular region	growth factor activity|neurotrophin receptor binding			pancreas(1)	1						CGCGATGTAAGGAAGCCAGGC	0.507													19	34	---	---	---	---	PASS
ANO2	57101	broad.mit.edu	37	12	5687656	5687656	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:5687656G>A	uc001qnm.2	-	22	2334	c.2262C>T	c.(2260-2262)TTC>TTT	p.F754F		NM_020373	NP_065106	Q9NQ90	ANO2_HUMAN	anoctamin 2	759	Helical; (Potential).					chloride channel complex|plasma membrane	intracellular calcium activated chloride channel activity			ovary(4)|large_intestine(2)|central_nervous_system(1)	7						AGGAGGCCACGAAGAGGGTGA	0.552													10	14	---	---	---	---	PASS
ANO2	57101	broad.mit.edu	37	12	5936980	5936980	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:5936980C>T	uc001qnm.2	-	7	907	c.835G>A	c.(835-837)GAG>AAG	p.E279K		NM_020373	NP_065106	Q9NQ90	ANO2_HUMAN	anoctamin 2	284	Cytoplasmic (Potential).					chloride channel complex|plasma membrane	intracellular calcium activated chloride channel activity			ovary(4)|large_intestine(2)|central_nervous_system(1)	7						TTCAGGATCTCGTGCACCTAA	0.687													3	7	---	---	---	---	PASS
VWF	7450	broad.mit.edu	37	12	6094223	6094223	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:6094223C>T	uc001qnn.1	-	40	7214	c.6964G>A	c.(6964-6966)GAG>AAG	p.E2322K	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	2322	VWFC 1.				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)	CACTCATACTCGGGGCAGCAC	0.587													16	44	---	---	---	---	PASS
VWF	7450	broad.mit.edu	37	12	6101092	6101092	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:6101092G>A	uc001qnn.1	-	38	6941	c.6691C>T	c.(6691-6693)CCC>TCC	p.P2231S	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	2231	E2.				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)	CCTTCGGAGGGATGGTCCCCA	0.562													20	20	---	---	---	---	PASS
VWF	7450	broad.mit.edu	37	12	6125939	6125939	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:6125939G>A	uc001qnn.1	-	29	5401	c.5151C>T	c.(5149-5151)TTC>TTT	p.F1717F	VWF_uc010set.1_Intron	NM_000552	NP_000543	P04275	VWF_HUMAN	von Willebrand factor preproprotein	1717	VWFA 3; main binding site for collagens type I and III.				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)	CTTTTGAAATGAAAGCCTTGG	0.483													24	75	---	---	---	---	PASS
SCNN1A	6337	broad.mit.edu	37	12	6483928	6483928	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:6483928C>T	uc001qnx.2	-	2	311	c.22G>A	c.(22-24)GAG>AAG	p.E8K	SCNN1A_uc001qnw.2_Missense_Mutation_p.E67K|SCNN1A_uc010sfb.1_Missense_Mutation_p.E31K|LTBR_uc010sfc.1_5'Flank	NM_001038	NP_001029	P37088	SCNNA_HUMAN	sodium channel, nonvoltage-gated 1 alpha isoform	8	Cytoplasmic (By similarity).				excretion|response to stimulus|sensory perception of taste	apical plasma membrane	WW domain binding				0					Amiloride(DB00594)|Triamterene(DB00384)	GAGTCCTGCTCCTCCAGCTTG	0.642													14	30	---	---	---	---	PASS
IFFO1	25900	broad.mit.edu	37	12	6650684	6650684	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:6650684C>T	uc001qpd.1	-	8	1602	c.1568G>A	c.(1567-1569)GGA>GAA	p.G523E	IFFO1_uc001qoy.2_RNA|IFFO1_uc001qpa.1_Missense_Mutation_p.G163E|IFFO1_uc001qpb.1_Missense_Mutation_p.G200E|IFFO1_uc001qpe.1_RNA|IFFO1_uc010sfe.1_Missense_Mutation_p.G535E|IFFO1_uc001qpf.1_Missense_Mutation_p.G526E|IFFO1_uc001qoz.1_Missense_Mutation_p.G164E|IFFO1_uc001qpc.1_Missense_Mutation_p.G527E|IFFO1_uc001qpg.2_Missense_Mutation_p.G164E	NM_080730	NP_542768	Q0D2I5	IFFO1_HUMAN	intermediate filament family orphan isoform 2	523						intermediate filament					0						CTACCGGTCTCCAGACTGGGT	0.642													8	26	---	---	---	---	PASS
USP5	8078	broad.mit.edu	37	12	6969353	6969353	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:6969353C>T	uc001qri.3	+	10	1228	c.1169C>T	c.(1168-1170)TCC>TTC	p.S390F	USP5_uc001qrh.3_Missense_Mutation_p.S390F	NM_001098536	NP_001092006	P45974	UBP5_HUMAN	ubiquitin specific peptidase 5 isoform 1	390					positive regulation of proteasomal ubiquitin-dependent protein catabolic process|protein K48-linked deubiquitination|ubiquitin-dependent protein catabolic process	lysosome	cysteine-type endopeptidase activity|omega peptidase activity|protein binding|ubiquitin thiolesterase activity|zinc ion binding			lung(2)|breast(1)|skin(1)	4						GGGGAGTATTCCAAGCCAGTA	0.572													7	19	---	---	---	---	PASS
ATN1	1822	broad.mit.edu	37	12	7048042	7048042	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:7048042C>T	uc001qrw.1	+	7	3153	c.2916C>T	c.(2914-2916)CCC>CCT	p.P972P	ATN1_uc001qrx.1_Silent_p.P972P	NM_001007026	NP_001007027	P54259	ATN1_HUMAN	atrophin-1	972					cell death|central nervous system development	cytoplasm|nucleus	protein domain specific binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						ATCCCTTTCCCCGACATGGGG	0.657													22	15	---	---	---	---	PASS
ATN1	1822	broad.mit.edu	37	12	7048043	7048043	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:7048043C>T	uc001qrw.1	+	7	3154	c.2917C>T	c.(2917-2919)CGA>TGA	p.R973*	ATN1_uc001qrx.1_Nonsense_Mutation_p.R973*	NM_001007026	NP_001007027	P54259	ATN1_HUMAN	atrophin-1	973					cell death|central nervous system development	cytoplasm|nucleus	protein domain specific binding			ovary(2)|breast(2)|pancreas(1)|skin(1)	6						TCCCTTTCCCCGACATGGGGG	0.662													25	15	---	---	---	---	PASS
C1S	716	broad.mit.edu	37	12	7171671	7171671	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:7171671C>T	uc001qsj.2	+	8	1211	c.492C>T	c.(490-492)CTC>CTT	p.L164L	C1S_uc001qsk.2_Silent_p.L164L|C1S_uc001qsl.2_Silent_p.L164L|C1S_uc009zfr.2_5'UTR|C1S_uc009zfs.2_RNA	NM_201442	NP_958850	P09871	C1S_HUMAN	complement component 1, s subcomponent	164	EGF-like; calcium-binding.				complement activation, classical pathway|innate immune response|proteolysis	extracellular region	calcium ion binding|serine-type endopeptidase activity			skin(1)	1					Abciximab(DB00054)|Adalimumab(DB00051)|Basiliximab(DB00074)|Cetuximab(DB00002)|Etanercept(DB00005)|Gemtuzumab ozogamicin(DB00056)|Ibritumomab(DB00078)|Immune globulin(DB00028)|Muromonab(DB00075)|Rituximab(DB00073)|Trastuzumab(DB00072)	AATATTTCCTCCATGATGACA	0.468													15	47	---	---	---	---	PASS
RBP5	83758	broad.mit.edu	37	12	7281010	7281010	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:7281010G>A	uc001qsq.2	-	2	173	c.78C>T	c.(76-78)ATC>ATT	p.I26I	CLSTN3_uc001qsr.2_5'Flank	NM_031491	NP_113679	P82980	RET5_HUMAN	retinol binding protein 5, cellular	26						cytoplasm	retinal binding|retinol binding|transporter activity			ovary(1)	1					Vitamin A(DB00162)	CAGCCAAGCTGATGTCTGTGG	0.612													5	21	---	---	---	---	PASS
PEX5	5830	broad.mit.edu	37	12	7343962	7343962	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:7343962C>T	uc009zfu.1	+						PEX5_uc001qsw.2_Intron|PEX5_uc010sgc.1_Intron|PEX5_uc001qsu.2_Intron|PEX5_uc010sgd.1_Intron|PEX5_uc001qsv.2_Intron	NM_001131026	NP_001124498	P50542	PEX5_HUMAN	peroxisomal biogenesis factor 5 isoform d						protein import into peroxisome matrix, translocation|protein targeting to peroxisome|protein tetramerization|protein transport	cytosol|peroxisomal matrix|peroxisomal membrane	peroxisome matrix targeting signal-1 binding|protein C-terminus binding|protein N-terminus binding			ovary(1)	1						GAGGTGAGTCCAGAGTCTAGT	0.572													18	29	---	---	---	---	PASS
ACSM4	341392	broad.mit.edu	37	12	7475830	7475830	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:7475830G>A	uc001qsx.1	+	8	1126	c.1126G>A	c.(1126-1128)GGA>AGA	p.G376R		NM_001080454	NP_001073923	P0C7M7	ACSM4_HUMAN	acyl-CoA synthetase medium-chain family member 4	376					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding				0						CTCTCAATAGGGAATGATTTG	0.353													11	17	---	---	---	---	PASS
CD163L1	283316	broad.mit.edu	37	12	7559321	7559321	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:7559321G>A	uc001qsy.2	-	5	920	c.894C>T	c.(892-894)GTC>GTT	p.V298V	CD163L1_uc010sge.1_Silent_p.V308V	NM_174941	NP_777601	Q9NR16	C163B_HUMAN	scavenger receptor cysteine-rich type 1	298	SRCR 3.|Extracellular (Potential).					extracellular region|integral to membrane|plasma membrane	scavenger receptor activity			ovary(8)|skin(2)|central_nervous_system(1)	11						GCTTGCATACGACATCAGCTG	0.517													34	55	---	---	---	---	PASS
DPPA3	359787	broad.mit.edu	37	12	7868817	7868817	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:7868817G>A	uc001qtf.2	+	3	429	c.351G>A	c.(349-351)AAG>AAA	p.K117K		NM_199286	NP_954980	Q6W0C5	DPPA3_HUMAN	stella	117						cytoplasm|nucleus					0				Kidney(36;0.0887)		CAACAAACAAGGAGCCTAAGG	0.274													12	15	---	---	---	---	PASS
NANOG	79923	broad.mit.edu	37	12	7945812	7945812	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:7945812G>A	uc009zfy.1	+							NM_024865	NP_079141	Q9H9S0	NANOG_HUMAN	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)		CAAACAGGTAGGCTTGTTTTG	0.433													14	24	---	---	---	---	PASS
SLC2A14	144195	broad.mit.edu	37	12	7984256	7984256	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:7984256G>A	uc001qtk.2	-	9	1078	c.285C>T	c.(283-285)TCC>TCT	p.S95S	SLC2A14_uc001qtl.2_Silent_p.S72S|SLC2A14_uc001qtm.2_Silent_p.S72S|SLC2A14_uc010sgg.1_Intron|SLC2A14_uc001qtn.2_Silent_p.S95S|SLC2A14_uc001qto.2_Intron|SLC2A14_uc010sgh.1_Silent_p.S110S	NM_153449	NP_703150	Q8TDB8	GTR14_HUMAN	glucose transporter 14	95	Helical; Name=2; (Potential).				cell differentiation|multicellular organismal development|spermatogenesis	integral to membrane	glucose transmembrane transporter activity			ovary(1)	1				Kidney(36;0.0883)		TACCCCCGACGGAAAATATGG	0.493											OREG0021654	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	29	45	---	---	---	---	PASS
SLC2A3	6515	broad.mit.edu	37	12	8074150	8074150	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:8074150G>A	uc001qtr.2	-	10	1612	c.1350C>T	c.(1348-1350)GTC>GTT	p.V450V		NM_006931	NP_008862	P11169	GTR3_HUMAN	solute carrier family 2 (facilitated glucose	450	Cytoplasmic (Potential).				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)		GGGTCTCAGGGACTTTGAAGA	0.478													13	64	---	---	---	---	PASS
CLEC4D	338339	broad.mit.edu	37	12	8673754	8673754	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:8673754G>A	uc001qun.2	+	6	728	c.535G>A	c.(535-537)GGA>AGA	p.G179R		NM_080387	NP_525126	Q8WXI8	CLC4D_HUMAN	C-type lectin domain family 4, member D	179	C-type lectin.|Extracellular (Potential).				innate immune response	integral to membrane	sugar binding				0	Lung SC(5;0.184)					CAACTCTCAGGGAGAAAACTG	0.353													25	20	---	---	---	---	PASS
A2ML1	144568	broad.mit.edu	37	12	9004620	9004620	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:9004620G>A	uc001quz.3	+						A2ML1_uc001qva.1_Intron|A2ML1_uc010sgm.1_Intron	NM_144670	NP_653271	A8K2U0	A2ML1_HUMAN	alpha-2-macroglobulin-like 1 precursor							extracellular space	endopeptidase inhibitor activity			ovary(2)|skin(1)	3						TGAGAGCTGGGGATACAGGAA	0.483													34	47	---	---	---	---	PASS
PZP	5858	broad.mit.edu	37	12	9304839	9304839	+	Missense_Mutation	SNP	G	A	A	rs147424033		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:9304839G>A	uc001qvl.2	-	32	4218	c.4189C>T	c.(4189-4191)CCC>TCC	p.P1397S	PZP_uc009zgl.2_Missense_Mutation_p.P1183S	NM_002864	NP_002855			pregnancy-zone protein precursor											ovary(3)|upper_aerodigestive_tract(1)|large_intestine(1)	5						GGTTTCAGGGGAATAAAACCA	0.353													14	46	---	---	---	---	PASS
CLEC9A	283420	broad.mit.edu	37	12	10218158	10218158	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:10218158C>T	uc001qxa.2	+	9	1266	c.653C>T	c.(652-654)TCC>TTC	p.S218F		NM_207345	NP_997228	Q6UXN8	CLC9A_HUMAN	C-type lectin domain family 9, member A	218	Extracellular (Potential).|C-type lectin.				positive regulation of cytokine secretion|receptor-mediated endocytosis	cell surface|integral to membrane	receptor activity|sugar binding			ovary(1)	1						AAAAGCAATTCCCTTCTTTCG	0.428													26	36	---	---	---	---	PASS
KLRD1	3824	broad.mit.edu	37	12	10462062	10462062	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:10462062G>A	uc001qxw.3	+	3	280	c.83G>A	c.(82-84)GGA>GAA	p.G28E	KLRD1_uc001qxx.3_Missense_Mutation_p.G28E|KLRD1_uc001qxy.3_Intron|KLRD1_uc009zhh.2_Missense_Mutation_p.G28E|KLRD1_uc009zhi.2_Missense_Mutation_p.G28E|KLRD1_uc001qxz.3_Missense_Mutation_p.G28E	NM_001114396	NP_001107868	Q13241	KLRD1_HUMAN	killer cell lectin-like receptor subfamily D,	28	Helical; Signal-anchor for type II membrane protein; (Potential).				cell surface receptor linked signaling pathway|regulation of immune response	integral to membrane|plasma membrane	sugar binding|transmembrane receptor activity				0						TCTACGTTGGGAATTTTGTTG	0.348													14	27	---	---	---	---	PASS
CSDA	8531	broad.mit.edu	37	12	10862602	10862602	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:10862602G>A	uc001qyt.2	-	6	928	c.685C>T	c.(685-687)CGC>TGC	p.R229C	CSDA_uc001qyu.2_Intron	NM_003651	NP_003642	P16989	DBPA_HUMAN	cold shock domain protein A isoform a	229					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)					TACTGAGGGCGATACTGGGGG	0.622													4	10	---	---	---	---	PASS
TAS2R8	50836	broad.mit.edu	37	12	10959202	10959202	+	Silent	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:10959202A>G	uc010shh.1	-	1	378	c.378T>C	c.(376-378)ATT>ATC	p.I126I		NM_023918	NP_076407	Q9NYW2	TA2R8_HUMAN	taste receptor, type 2, member 8	126	Cytoplasmic (Potential).				sensory perception of taste	integral to membrane	taste receptor activity			ovary(2)	2						CCACCATATCAATTTTCCACT	0.413													12	39	---	---	---	---	PASS
PRB3	5544	broad.mit.edu	37	12	11420362	11420362	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:11420362C>T	uc001qzs.2	-						PRB4_uc001qzf.1_Intron	NM_006249	NP_006240	Q04118	PRB3_HUMAN	proline-rich protein BstNI subfamily 3							extracellular region	Gram-negative bacterial cell surface binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(49;0.201)			TTTGTTGCCTCCTTGTGAAGG	0.587													98	145	---	---	---	---	PASS
PRB3	5544	broad.mit.edu	37	12	11421019	11421019	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:11421019C>T	uc001qzs.2	-	3	202	c.164G>A	c.(163-165)GGA>GAA	p.G55E	PRB4_uc001qzf.1_Intron	NM_006249	NP_006240	Q04118	PRB3_HUMAN	proline-rich protein BstNI subfamily 3	55	1.|10 X 21 AA tandem repeats of [RH]-P-G-K- P-[EQ]-G-[PQS]-P-[PS]-Q-[GE]-G-N-[QK]- [SP]-[QR]-[GR]-P-P-P.|Pro-rich.					extracellular region	Gram-negative bacterial cell surface binding			skin(1)	1			OV - Ovarian serous cystadenocarcinoma(49;0.201)			TTCTGGCTTTCCTGGAGGAGG	0.597													48	113	---	---	---	---	PASS
PRB4	5545	broad.mit.edu	37	12	11461601	11461601	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:11461601C>T	uc001qzf.1	-	3	350	c.316G>A	c.(316-318)GGA>AGA	p.G106R	PRB4_uc001qzt.2_Missense_Mutation_p.G106R	NM_002723	NP_002714	P10163	PRB4_HUMAN	proline-rich protein BstNI subfamily 4	148	9.5 X 21 AA tandem repeats of K-P-[EQ]- [GR]-[PR]-[PR]-P-Q-G-G-N-Q-[PS]-[QH]- [RG]-[PT]-P-P-[PH]-P-G.|6.		Missing (in allele M and allele S).			extracellular region				ovary(1)	1						TGGTTTCCTCCTTGTGGGGGT	0.617										HNSCC(22;0.051)			30	189	---	---	---	---	PASS
PRB1	5542	broad.mit.edu	37	12	11506298	11506298	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:11506298C>T	uc001qzw.1	-	4	776	c.739G>A	c.(739-741)GGA>AGA	p.G247R	PRB1_uc001qzu.1_Missense_Mutation_p.G114R|PRB1_uc001qzv.1_Intron	NM_005039	NP_005030	P04280	PRP1_HUMAN	proline-rich protein BstNI subfamily 1 isoform 1	308	13.|15 X 20 AA approximate tandem repeats of P-P-G-K-P-Q-G-P-P-[PAQ]-Q-[GE]-[GD]- [NKS]-[KSQRN]-[PRQS]-[QS] [GPS]-[PQAR]- [PSR].		Missing (in clone CP-5).			extracellular region					0			OV - Ovarian serous cystadenocarcinoma(49;0.185)			TTGTTGCCTCCTTGTGGGGGT	0.607													27	140	---	---	---	---	PASS
PRB1	5542	broad.mit.edu	37	12	11506313	11506313	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:11506313C>T	uc001qzw.1	-	4	761	c.724G>A	c.(724-726)GGA>AGA	p.G242R	PRB1_uc001qzu.1_Missense_Mutation_p.G109R|PRB1_uc001qzv.1_Intron	NM_005039	NP_005030	P04280	PRP1_HUMAN	proline-rich protein BstNI subfamily 1 isoform 1	303	13.|15 X 20 AA approximate tandem repeats of P-P-G-K-P-Q-G-P-P-[PAQ]-Q-[GE]-[GD]- [NKS]-[KSQRN]-[PRQS]-[QS] [GPS]-[PQAR]- [PSR].		Missing (in clone CP-5).			extracellular region					0			OV - Ovarian serous cystadenocarcinoma(49;0.185)			GGGGGTGGTCCTTGTGGCTTT	0.617													32	74	---	---	---	---	PASS
MANSC1	54682	broad.mit.edu	37	12	12483867	12483867	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:12483867C>A	uc001rai.1	-	4	648	c.390G>T	c.(388-390)TTG>TTT	p.L130F	MANSC1_uc010shm.1_Missense_Mutation_p.L64F|MANSC1_uc001raj.1_Missense_Mutation_p.L96F|MANSC1_uc009zht.1_Missense_Mutation_p.L49F	NM_018050	NP_060520	Q9H8J5	MANS1_HUMAN	MANSC domain containing 1 precursor	130	Extracellular (Potential).					integral to membrane					0		Prostate(47;0.0865)		BRCA - Breast invasive adenocarcinoma(232;0.185)		CTTGGCTTGGCAAATTTCTGG	0.388													21	44	---	---	---	---	PASS
GRIN2B	2904	broad.mit.edu	37	12	13720178	13720178	+	Silent	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:13720178T>C	uc001rbt.2	-	12	2558	c.2379A>G	c.(2377-2379)GAA>GAG	p.E793E		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	793	Extracellular (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)	GCCAGAGAGCTTCCAGTTCTT	0.323													8	31	---	---	---	---	PASS
GRIN2B	2904	broad.mit.edu	37	12	14018920	14018920	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:14018920C>A	uc001rbt.2	-	2	402	c.223G>T	c.(223-225)GAG>TAG	p.E75*		NM_000834	NP_000825	Q13224	NMDE2_HUMAN	N-methyl-D-aspartate receptor subunit 2B	75	Extracellular (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)	GGGTCGGTCTCATTCATGGCT	0.557													35	51	---	---	---	---	PASS
ATF7IP	55729	broad.mit.edu	37	12	14634064	14634064	+	Silent	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:14634064C>A	uc001rbw.2	+	13	3383	c.3225C>A	c.(3223-3225)CCC>CCA	p.P1075P	ATF7IP_uc001rbv.1_Silent_p.P1074P|ATF7IP_uc001rbx.2_Silent_p.P1074P|ATF7IP_uc001rby.3_Silent_p.P1075P|ATF7IP_uc001rca.2_Silent_p.P1075P	NM_018179	NP_060649	Q6VMQ6	MCAF1_HUMAN	activating transcription factor 7 interacting	1075					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						CTCAGGCTCCCTTGCGAGGAA	0.493													4	50	---	---	---	---	PASS
MGP	4256	broad.mit.edu	37	12	15035064	15035064	+	3'UTR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:15035064C>T	uc001rcn.1	-	4						NM_000900	NP_000891	P08493	MGP_HUMAN	matrix Gla protein precursor						cartilage condensation|cell differentiation|ossification|regulation of bone mineralization	proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent|structural constituent of bone			ovary(1)	1						TTTTTTTCTTCCCTCAGTCTC	0.428													33	28	---	---	---	---	PASS
PTPRO	5800	broad.mit.edu	37	12	15656871	15656871	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:15656871G>A	uc001rcv.1	+	6	1309	c.1135G>A	c.(1135-1137)GAA>AAA	p.E379K	PTPRO_uc001rcw.1_Missense_Mutation_p.E379K|PTPRO_uc001rcu.1_Missense_Mutation_p.E379K	NM_030667	NP_109592	Q16827	PTPRO_HUMAN	receptor-type protein tyrosine phosphatase O	379	Fibronectin type-III 4.|Extracellular (Potential).					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)				GATGGTGGATGAAGAAGCACA	0.368													12	31	---	---	---	---	PASS
STRAP	11171	broad.mit.edu	37	12	16048369	16048369	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:16048369C>T	uc001rdc.3	+	6	931	c.577C>T	c.(577-579)CCT>TCT	p.P193S	STRAP_uc010shw.1_Missense_Mutation_p.P206S|STRAP_uc001rdd.3_Missense_Mutation_p.P99S	NM_007178	NP_009109	Q9Y3F4	STRAP_HUMAN	serine/threonine kinase receptor associated	193	WD 5.				mRNA processing|RNA splicing	cell junction|mitochondrion|spliceosomal complex	identical protein binding			skin(1)	1		Hepatocellular(102;0.121)				GGAATATATTCCTGAGGGAGA	0.303													15	22	---	---	---	---	PASS
PDE3A	5139	broad.mit.edu	37	12	20799438	20799438	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:20799438C>T	uc001reh.1	+	11	2288	c.2266C>T	c.(2266-2268)CAT>TAT	p.H756Y		NM_000921	NP_000912	Q14432	PDE3A_HUMAN	phosphodiesterase 3A	756	Catalytic (By similarity).	Divalent metal cation 1 (By similarity).			lipid metabolic process|platelet activation|signal transduction	cytosol|integral to membrane	3',5'-cyclic-AMP phosphodiesterase activity|3',5'-cyclic-GMP phosphodiesterase activity|cGMP-inhibited cyclic-nucleotide phosphodiesterase activity|metal ion binding			ovary(3)|upper_aerodigestive_tract(1)	4	Esophageal squamous(101;0.125)	Breast(259;0.134)			Aminophylline(DB01223)|Amrinone(DB01427)|Anagrelide(DB00261)|Cilostazol(DB01166)|Enoximone(DB04880)|Milrinone(DB00235)|Theophylline(DB00277)	TAACAGAATCCATGCCACTGA	0.413													9	36	---	---	---	---	PASS
SLCO1C1	53919	broad.mit.edu	37	12	20868132	20868132	+	Missense_Mutation	SNP	C	T	T	rs150378278		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:20868132C>T	uc001rej.3	+	7	944	c.589C>T	c.(589-591)CGT>TGT	p.R197C	SLCO1C1_uc010sii.1_Missense_Mutation_p.R197C|SLCO1C1_uc010sij.1_Intron|SLCO1C1_uc009zip.2_Missense_Mutation_p.R31C|SLCO1C1_uc001rei.2_Missense_Mutation_p.R197C|SLCO1C1_uc010sik.1_Missense_Mutation_p.R79C	NM_017435	NP_059131	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family,	197	Helical; Name=4; (Potential).				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)					CAATCTTCTTCGTGGAATAGG	0.413													19	49	---	---	---	---	PASS
SLCO1C1	53919	broad.mit.edu	37	12	20874867	20874867	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:20874867C>T	uc001rej.3	+	9	1260	c.905C>T	c.(904-906)TCC>TTC	p.S302F	SLCO1C1_uc010sii.1_Missense_Mutation_p.S302F|SLCO1C1_uc010sij.1_Missense_Mutation_p.S253F|SLCO1C1_uc009zip.2_Missense_Mutation_p.S136F|SLCO1C1_uc001rei.2_Missense_Mutation_p.S302F|SLCO1C1_uc010sik.1_Missense_Mutation_p.S184F	NM_017435	NP_059131	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family,	302	Cytoplasmic (Potential).				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)					TTACCAAGATCCCAAAGTAGA	0.413													4	39	---	---	---	---	PASS
SLCO1C1	53919	broad.mit.edu	37	12	20876032	20876032	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:20876032C>T	uc001rej.3	+	10	1385	c.1030C>T	c.(1030-1032)CCA>TCA	p.P344S	SLCO1C1_uc010sii.1_Missense_Mutation_p.P344S|SLCO1C1_uc010sij.1_Missense_Mutation_p.P295S|SLCO1C1_uc009zip.2_Missense_Mutation_p.P178S|SLCO1C1_uc001rei.2_Missense_Mutation_p.P344S|SLCO1C1_uc010sik.1_Missense_Mutation_p.P226S	NM_017435	NP_059131	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family,	344	Cytoplasmic (Potential).				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)					AGATTTTCTTCCATCACTGAA	0.413													4	24	---	---	---	---	PASS
SLCO1C1	53919	broad.mit.edu	37	12	20885888	20885888	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:20885888G>A	uc001rej.3	+	11	1587	c.1232G>A	c.(1231-1233)GGG>GAG	p.G411E	SLCO1C1_uc010sii.1_Missense_Mutation_p.G411E|SLCO1C1_uc010sij.1_Missense_Mutation_p.G362E|SLCO1C1_uc009zip.2_Missense_Mutation_p.G245E|SLCO1C1_uc001rei.2_Missense_Mutation_p.G411E|SLCO1C1_uc010sik.1_Missense_Mutation_p.G293E	NM_017435	NP_059131	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family,	411	Helical; Name=8; (Potential).				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)					TTCTCTGGGGGGATAGTTATG	0.388													14	23	---	---	---	---	PASS
SLCO1C1	53919	broad.mit.edu	37	12	20905317	20905317	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:20905317A>C	uc001rej.3	+	16	2349	c.1994A>C	c.(1993-1995)AAG>ACG	p.K665T	SLCO1C1_uc010sii.1_Missense_Mutation_p.K699N|SLCO1C1_uc010sij.1_Missense_Mutation_p.K616T|SLCO1C1_uc009zip.2_Missense_Mutation_p.K533N|SLCO1C1_uc001rei.2_Missense_Mutation_p.K665T|SLCO1C1_uc010sik.1_Missense_Mutation_p.K581N	NM_017435	NP_059131	Q9NYB5	SO1C1_HUMAN	solute carrier organic anion transporter family,	665	Cytoplasmic (Potential).				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)					TTCATTTTAAAGAAAAATTAT	0.333													5	17	---	---	---	---	PASS
SLCO1B3	28234	broad.mit.edu	37	12	21028281	21028281	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:21028281G>A	uc001rek.2	+	8	966	c.840G>A	c.(838-840)CCG>CCA	p.P280P	SLCO1B3_uc001rel.2_Silent_p.P280P|SLCO1B3_uc010sil.1_Silent_p.P280P|LST-3TM12_uc010sim.1_Intron|SLCO1B3_uc001reo.2_Silent_p.P105P	NM_019844	NP_062818	Q9NPD5	SO1B3_HUMAN	solute carrier organic anion transporter family,	280	Helical; Name=6; (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					TTTTCTTGCCGAAAAATCCAA	0.358													19	53	---	---	---	---	PASS
SLCO1B3	28234	broad.mit.edu	37	12	21054322	21054322	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:21054322G>A	uc001rek.2	+	14	1912	c.1786G>A	c.(1786-1788)GAT>AAT	p.D596N	SLCO1B3_uc001rel.2_Missense_Mutation_p.D596N|SLCO1B3_uc010sil.1_Missense_Mutation_p.D596N|LST-3TM12_uc010sim.1_Intron|SLCO1B3_uc001reo.2_Missense_Mutation_p.D421N	NM_019844	NP_062818	Q9NPD5	SO1B3_HUMAN	solute carrier organic anion transporter family,	596	Extracellular (Potential).				bile acid metabolic process|sodium-independent organic anion transport	basolateral plasma membrane|cytoplasm|integral to plasma membrane	bile acid transmembrane transporter activity|organic anion transmembrane transporter activity			large_intestine(2)|ovary(1)|skin(1)	4	Esophageal squamous(101;0.149)					GGCTCTGATTGATAAAACATG	0.378													24	68	---	---	---	---	PASS
SLCO1A2	6579	broad.mit.edu	37	12	21453300	21453300	+	Nonsense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:21453300T>A	uc001rer.2	-	7	1143	c.892A>T	c.(892-894)AAA>TAA	p.K298*	SLCO1A2_uc001res.2_Nonsense_Mutation_p.K298*|SLCO1A2_uc010siq.1_Nonsense_Mutation_p.K166*|SLCO1A2_uc010sio.1_Nonsense_Mutation_p.K166*|SLCO1A2_uc010sip.1_Nonsense_Mutation_p.K166*|SLCO1A2_uc001ret.2_Nonsense_Mutation_p.K296*|SLCO1A2_uc001reu.2_Nonsense_Mutation_p.K278*	NM_021094	NP_066580	P46721	SO1A2_HUMAN	organic anion transporting polypeptide A	298	Cytoplasmic (Potential).				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						ATTCCATATTTTTCCTTCTTG	0.299													5	24	---	---	---	---	PASS
SLCO1A2	6579	broad.mit.edu	37	12	21457408	21457408	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:21457408G>A	uc001rer.2	-	5	793	c.542C>T	c.(541-543)TCC>TTC	p.S181F	SLCO1A2_uc001res.2_Missense_Mutation_p.S181F|SLCO1A2_uc010siq.1_Missense_Mutation_p.S49F|SLCO1A2_uc010sio.1_Missense_Mutation_p.S49F|SLCO1A2_uc010sip.1_Missense_Mutation_p.S49F|SLCO1A2_uc001ret.2_Missense_Mutation_p.S179F|SLCO1A2_uc001reu.2_Missense_Mutation_p.S161F	NM_021094	NP_066580	P46721	SO1A2_HUMAN	organic anion transporting polypeptide A	181	Helical; Name=4; (Potential).				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						TTCTATATAGGAAATACCCAA	0.343													24	26	---	---	---	---	PASS
GYS2	2998	broad.mit.edu	37	12	21715933	21715933	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:21715933G>A	uc001rfb.2	-	7	1236	c.981C>T	c.(979-981)TTC>TTT	p.F327F		NM_021957	NP_068776	P54840	GYS2_HUMAN	glycogen synthase 2	327					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						TCCCAGCAATGAAAAGGAACA	0.368													18	40	---	---	---	---	PASS
ABCC9	10060	broad.mit.edu	37	12	21954063	21954063	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:21954063C>T	uc001rfh.2	-	38	4585	c.4565G>A	c.(4564-4566)GGA>GAA	p.G1522E	ABCC9_uc001rfg.2_Missense_Mutation_p.G51E	NM_020297	NP_064693	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	1522	Cytoplasmic (Potential).|ABC transporter 2.				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	TAAAATATTTCCTCGCTTCAT	0.408													13	31	---	---	---	---	PASS
ABCC9	10060	broad.mit.edu	37	12	22047070	22047070	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:22047070C>T	uc001rfi.1	-	12	1718	c.1698G>A	c.(1696-1698)CTG>CTA	p.L566L	ABCC9_uc001rfh.2_Silent_p.L566L|ABCC9_uc001rfj.1_Silent_p.L566L	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	566	Extracellular (Potential).|ABC transmembrane type-1 1.				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	CTGCAGGTTTCAGATTGTTTC	0.468													13	32	---	---	---	---	PASS
ABCC9	10060	broad.mit.edu	37	12	22078890	22078890	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:22078890G>T	uc001rfi.1	-	3	412	c.392C>A	c.(391-393)CCT>CAT	p.P131H	ABCC9_uc001rfh.2_Missense_Mutation_p.P131H|ABCC9_uc001rfj.1_Missense_Mutation_p.P131H|ABCC9_uc001rfk.2_Missense_Mutation_p.P131H|ABCC9_uc001rfl.1_Missense_Mutation_p.P131H	NM_005691	NP_005682	O60706	ABCC9_HUMAN	ATP-binding cassette, sub-family C, member 9	131	Cytoplasmic (Potential).				defense response to virus|potassium ion import	ATP-sensitive potassium channel complex	ATP binding|ATPase activity, coupled to transmembrane movement of substances|potassium channel regulator activity|sulfonylurea receptor activity			ovary(4)|skin(2)	6					Adenosine triphosphate(DB00171)|Glibenclamide(DB01016)	AAGTAATTTAGGAAAATTTGA	0.363													13	45	---	---	---	---	PASS
SOX5	6660	broad.mit.edu	37	12	23893870	23893870	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:23893870C>T	uc001rfw.2	-	5	774	c.672G>A	c.(670-672)AAG>AAA	p.K224K	SOX5_uc001rfx.2_Silent_p.K211K|SOX5_uc001rfy.2_Silent_p.K211K|SOX5_uc010siv.1_Silent_p.K211K|SOX5_uc010siw.1_RNA|SOX5_uc001rfz.1_Silent_p.K176K	NM_006940	NP_008871	P35711	SOX5_HUMAN	SRY (sex determining region Y)-box 5 isoform a	224	Potential.				transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(5)|lung(1)	6						CAGCTAGTTTCTTCTGCTCAT	0.507													16	20	---	---	---	---	PASS
ITPR2	3709	broad.mit.edu	37	12	26868709	26868709	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:26868709G>A	uc001rhg.2	-	7	1101	c.684C>T	c.(682-684)TCC>TCT	p.S228S		NM_002223	NP_002214	Q14571	ITPR2_HUMAN	inositol 1,4,5-triphosphate receptor, type 2	228	Cytoplasmic (Potential).				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)					CCTCTCGATAGGAACTATATT	0.348													10	42	---	---	---	---	PASS
IPO8	10526	broad.mit.edu	37	12	30823889	30823889	+	Intron	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:30823889C>A	uc001rjd.2	-						IPO8_uc010sjt.1_Intron	NM_006390	NP_006381	O15397	IPO8_HUMAN	importin 8						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)					TGCTCTCTGACACTAACCTGT	0.363													42	48	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	12	31300807	31300807	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:31300807G>A	uc010sjy.1	-											RecName: Full=Ovostatin homolog 1; Flags: Precursor;																		AGGATTCCAGGAACCCACTGA	0.458													27	111	---	---	---	---	PASS
C12orf35	55196	broad.mit.edu	37	12	32134112	32134112	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:32134112G>T	uc001rks.2	+	4	637	c.223G>T	c.(223-225)GTT>TTT	p.V75F		NM_018169	NP_060639	Q9HCM1	CL035_HUMAN	hypothetical protein LOC55196	75										ovary(1)|skin(1)	2	all_cancers(9;3.36e-11)|all_epithelial(9;2.56e-11)|all_lung(12;5.67e-10)|Acute lymphoblastic leukemia(23;0.0122)|Lung SC(12;0.0336)|all_hematologic(23;0.0429)|Esophageal squamous(101;0.204)		OV - Ovarian serous cystadenocarcinoma(6;0.0114)			ACAAATTTCTGTTTCTGATAT	0.373													17	30	---	---	---	---	PASS
CPNE8	144402	broad.mit.edu	37	12	39124151	39124151	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:39124151G>A	uc001rls.1	-	11	816	c.732C>T	c.(730-732)TTC>TTT	p.F244F		NM_153634	NP_705898	Q86YQ8	CPNE8_HUMAN	copine VIII	244	C2 2.									pancreas(1)	1	Esophageal squamous(101;0.187)	Lung NSC(34;0.137)|Melanoma(24;0.152)|all_lung(34;0.157)				ATTCTCCAATGAAATCATGAC	0.279													15	14	---	---	---	---	PASS
ABCD2	225	broad.mit.edu	37	12	40012821	40012821	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:40012821C>T	uc001rmb.2	-	1	1023	c.597G>A	c.(595-597)ATG>ATA	p.M199I		NM_005164	NP_005155	Q9UBJ2	ABCD2_HUMAN	ATP-binding cassette, sub-family D, member 2	199	ABC transmembrane type-1.|Interaction with PEX19.				fatty acid metabolic process|transport	ATP-binding cassette (ABC) transporter complex|integral to plasma membrane|peroxisomal membrane	ATP binding|ATPase activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|central_nervous_system(1)|skin(1)	6						GCCTCCCATCCATATTGATCA	0.418													8	60	---	---	---	---	PASS
ABCD2	225	broad.mit.edu	37	12	40012996	40012996	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:40012996C>T	uc001rmb.2	-	1	848	c.422G>A	c.(421-423)CGG>CAG	p.R141Q		NM_005164	NP_005155	Q9UBJ2	ABCD2_HUMAN	ATP-binding cassette, sub-family D, member 2	141	ABC transmembrane type-1.|Interaction with PEX19.				fatty acid metabolic process|transport	ATP-binding cassette (ABC) transporter complex|integral to plasma membrane|peroxisomal membrane	ATP binding|ATPase activity|protein binding			ovary(2)|upper_aerodigestive_tract(1)|pancreas(1)|central_nervous_system(1)|skin(1)	6						GATGAAAGTCCGAGGCTTCTT	0.438													14	24	---	---	---	---	PASS
SLC2A13	114134	broad.mit.edu	37	12	40154015	40154015	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:40154015A>T	uc010skm.1	-	10	1811	c.1760T>A	c.(1759-1761)CTC>CAC	p.L587H	C12orf40_uc009zjv.1_Intron	NM_052885	NP_443117	Q96QE2	MYCT_HUMAN	solute carrier family 2 (facilitated glucose	587	Helical; Name=12; (Potential).					integral to membrane|plasma membrane	myo-inositol:hydrogen symporter activity			ovary(1)	1		Lung NSC(34;0.105)|all_lung(34;0.123)				GATGAAAAGGAGTCCCACAGC	0.393										HNSCC(50;0.14)			13	17	---	---	---	---	PASS
CNTN1	1272	broad.mit.edu	37	12	41337879	41337879	+	Silent	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:41337879T>C	uc001rmm.1	+	14	1703	c.1590T>C	c.(1588-1590)TTT>TTC	p.F530F	CNTN1_uc009zjy.1_Silent_p.F530F|CNTN1_uc001rmn.1_Silent_p.F519F|CNTN1_uc001rmo.2_Silent_p.F530F	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	530	Ig-like C2-type 6.				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)				CTGCGTCCTTTGATCCTGCCT	0.393													13	32	---	---	---	---	PASS
CNTN1	1272	broad.mit.edu	37	12	41414201	41414201	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:41414201C>T	uc001rmm.1	+	20	2595	c.2482C>T	c.(2482-2484)CAT>TAT	p.H828Y	CNTN1_uc001rmn.1_Missense_Mutation_p.H817Y	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	828	Fibronectin type-III 3.				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)				GATATCTGTTCATTGGGAACA	0.294													5	30	---	---	---	---	PASS
CNTN1	1272	broad.mit.edu	37	12	41418956	41418956	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:41418956G>C	uc001rmm.1	+	21	2641	c.2528G>C	c.(2527-2529)CGG>CCG	p.R843P	CNTN1_uc001rmn.1_Missense_Mutation_p.R832P	NM_001843	NP_001834	Q12860	CNTN1_HUMAN	contactin 1 isoform 1 precursor	843	Fibronectin type-III 3.				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)				TTGCAGATTCGGTATTGGGCT	0.458													65	68	---	---	---	---	PASS
PDZRN4	29951	broad.mit.edu	37	12	41966734	41966734	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:41966734G>A	uc010skn.1	+	10	1624	c.1556G>A	c.(1555-1557)AGG>AAG	p.R519K	PDZRN4_uc001rmq.3_Missense_Mutation_p.R460K|PDZRN4_uc009zjz.2_Missense_Mutation_p.R458K|PDZRN4_uc001rmr.2_Missense_Mutation_p.R345K	NM_013377	NP_037509	Q6ZMN7	PZRN4_HUMAN	PDZ domain containing RING finger 4 isoform 2	718							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)				GATATGCAAAGGGGAAAGCTA	0.473													16	87	---	---	---	---	PASS
PRICKLE1	144165	broad.mit.edu	37	12	42854137	42854137	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:42854137C>T	uc010skv.1	-	8	2257	c.1970G>A	c.(1969-1971)CGG>CAG	p.R657Q	PRICKLE1_uc001rnl.2_Missense_Mutation_p.R657Q|PRICKLE1_uc010skw.1_Missense_Mutation_p.R657Q|PRICKLE1_uc001rnm.2_Missense_Mutation_p.R657Q|PRICKLE1_uc001rnk.1_5'Flank	NM_001144881	NP_001138353	Q96MT3	PRIC1_HUMAN	prickle homolog 1	657	Arg/His-rich.				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)		GACGCGTCTCCGAGTCCTTTC	0.507													8	34	---	---	---	---	PASS
ADAMTS20	80070	broad.mit.edu	37	12	43847772	43847772	+	Silent	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:43847772A>G	uc010skx.1	-	12	1698	c.1698T>C	c.(1696-1698)AGT>AGC	p.S566S		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	566	TSP type-1 1.					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)		TTGAACAAGAACTGTAAGGTT	0.403													7	12	---	---	---	---	PASS
ADAMTS20	80070	broad.mit.edu	37	12	43858458	43858458	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:43858458C>T	uc010skx.1	-	10	1445	c.1445G>A	c.(1444-1446)CGA>CAA	p.R482Q		NM_025003	NP_079279	P59510	ATS20_HUMAN	a disintegrin-like and metalloprotease with	482	Disintegrin.					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)		TCCATCATATCGTGATCCAGG	0.383													12	59	---	---	---	---	PASS
DBX2	440097	broad.mit.edu	37	12	45429899	45429899	+	Splice_Site	SNP	T	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:45429899T>G	uc001rok.1	-	2	576	c.404_splice	c.e2-1	p.A135_splice		NM_001004329	NP_001004329	Q6ZNG2	DBX2_HUMAN	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)		tggaaggtgctgcagagaaag	0.075													7	4	---	---	---	---	PASS
ARID2	196528	broad.mit.edu	37	12	46211527	46211527	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:46211527C>T	uc001ros.1	+	5	493	c.493C>T	c.(493-495)CTG>TTG	p.L165L	ARID2_uc001ror.2_Silent_p.L165L	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	165					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)		GGTGCTTTCACTGTTATCTGG	0.358													20	13	---	---	---	---	PASS
ARID2	196528	broad.mit.edu	37	12	46245535	46245535	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:46245535T>C	uc001ros.1	+	15	3629	c.3629T>C	c.(3628-3630)GTT>GCT	p.V1210A	ARID2_uc001ror.2_Missense_Mutation_p.V1210A|ARID2_uc009zkg.1_Missense_Mutation_p.V666A|ARID2_uc009zkh.1_Missense_Mutation_p.V837A|ARID2_uc001rou.1_Missense_Mutation_p.V544A	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	1210					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)		CAGACAGGAGTTGGACTTCCA	0.473													15	11	---	---	---	---	PASS
ARID2	196528	broad.mit.edu	37	12	46246497	46246497	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:46246497C>T	uc001ros.1	+	15	4591	c.4591C>T	c.(4591-4593)CCA>TCA	p.P1531S	ARID2_uc001ror.2_Missense_Mutation_p.P1531S|ARID2_uc009zkg.1_Missense_Mutation_p.P987S|ARID2_uc009zkh.1_Missense_Mutation_p.P1158S|ARID2_uc001rou.1_Missense_Mutation_p.P865S	NM_152641	NP_689854	Q68CP9	ARID2_HUMAN	AT rich interactive domain 2 (ARID, RFX-like)	1531					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)		CGCAGGAATTCCAAATAAAGT	0.478													7	51	---	---	---	---	PASS
H1FNT	341567	broad.mit.edu	37	12	48723693	48723693	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:48723693G>A	uc001rrm.2	+	1	931	c.619G>A	c.(619-621)GAA>AAA	p.E207K		NM_181788	NP_861453	Q75WM6	H1FNT_HUMAN	H1 histone family, member N, testis-specific	207					chromosome condensation|multicellular organismal development|sperm chromatin condensation|spermatid nucleus elongation	nuclear chromatin	ATP binding|DNA binding			pancreas(1)	1						AGCCAAGGAGGAAGCGGGAGC	0.672													7	7	---	---	---	---	PASS
OR8S1	341568	broad.mit.edu	37	12	48919789	48919789	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:48919789C>T	uc010slu.1	+	1	375	c.375C>T	c.(373-375)GCC>GCT	p.A125A		NM_001005203	NP_001005203	Q8NH09	OR8S1_HUMAN	olfactory receptor, family 8, subfamily S,	125	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						GCCATGCTGCCATCTGCCGCC	0.542													25	28	---	---	---	---	PASS
ADCY6	112	broad.mit.edu	37	12	49166093	49166093	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:49166093G>A	uc001rsh.3	-	17	3432	c.2772C>T	c.(2770-2772)TTC>TTT	p.F924F	ADCY6_uc001rsj.3_Silent_p.F924F|ADCY6_uc001rsi.3_Silent_p.F871F|ADCY6_uc010slw.1_Silent_p.F155F	NM_015270	NP_056085	O43306	ADCY6_HUMAN	adenylate cyclase 6 isoform a	924	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	ATP binding|metal ion binding				0						GTTTCCAGAGGAAGTCTAGGC	0.582													23	21	---	---	---	---	PASS
DDX23	9416	broad.mit.edu	37	12	49230001	49230001	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:49230001G>A	uc001rsm.2	-	11	1376	c.1285C>T	c.(1285-1287)CGT>TGT	p.R429C		NM_004818	NP_004809	Q9BUQ8	DDX23_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 23	429	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						ATGATGTCACGATTCTGTAGC	0.512													15	83	---	---	---	---	PASS
CCDC65	85478	broad.mit.edu	37	12	49308340	49308340	+	Missense_Mutation	SNP	G	A	A	rs145334864		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:49308340G>A	uc001rso.2	+	3	681	c.454G>A	c.(454-456)GAG>AAG	p.E152K		NM_033124	NP_149115	Q8IXS2	CCD65_HUMAN	coiled-coil domain containing 65	152	Potential.									ovary(1)|skin(1)	2						CCTAACCAAGGAGTTTGAGAC	0.542													21	23	---	---	---	---	PASS
TUBA1C	84790	broad.mit.edu	37	12	49666170	49666170	+	Silent	SNP	C	A	A	rs113331886	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:49666170C>A	uc001rts.2	+	5	863	c.405C>A	c.(403-405)TCC>TCA	p.S135S	TUBA1C_uc010smh.1_Silent_p.S240S|TUBA1C_uc001rtt.1_Silent_p.S170S|uc010smi.1_Nonsense_Mutation_p.G140*	NM_032704	NP_116093	Q9BQE3	TBA1C_HUMAN	tubulin alpha 6	170					'de novo' posttranslational protein folding|microtubule-based movement|protein polymerization	cytoplasm|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity				0						TGGAGTTCTCCATTTACCCGG	0.542													6	22	---	---	---	---	PASS
FAM186B	84070	broad.mit.edu	37	12	49994501	49994501	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:49994501G>A	uc001ruo.2	-	4	1095	c.922C>T	c.(922-924)CTC>TTC	p.L308F	FAM186B_uc010smk.1_Missense_Mutation_p.L218F	NM_032130	NP_115506	Q8IYM0	F186B_HUMAN	hypothetical protein LOC84070	308	Potential.					protein complex				ovary(1)	1						TTCATCAGGAGAAGGTCATGG	0.552													86	82	---	---	---	---	PASS
FMNL3	91010	broad.mit.edu	37	12	50050977	50050977	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:50050977G>A	uc001ruv.1	-						FMNL3_uc001ruw.1_Intron|FMNL3_uc001ruu.1_Intron	NM_175736	NP_783863	Q8IVF7	FMNL3_HUMAN	formin-like 3 isoform 1						actin cytoskeleton organization		actin binding|Rho GTPase binding			breast(2)|pancreas(2)	4						GCTATACCTGGGGAGATGGGC	0.607													19	14	---	---	---	---	PASS
NCKAP5L	57701	broad.mit.edu	37	12	50187175	50187175	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:50187175C>T	uc009zlk.2	-	10	3502	c.3300G>A	c.(3298-3300)GAG>GAA	p.E1100E	NCKAP5L_uc001rvc.3_Silent_p.E304E|NCKAP5L_uc001rvb.2_Silent_p.E693E	NM_001037806	NP_001032895	Q9HCH0	NCK5L_HUMAN	NCK-associated protein 5-like	1096	Pro-rich.									central_nervous_system(1)	1						CCAGGCTGTCCTCCGAGGGCA	0.662													13	14	---	---	---	---	PASS
NCKAP5L	57701	broad.mit.edu	37	12	50191039	50191039	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:50191039G>A	uc009zlk.2	-	8	806	c.604C>T	c.(604-606)CCC>TCC	p.P202S	NCKAP5L_uc001rvc.3_5'Flank|NCKAP5L_uc001rvb.2_5'UTR	NM_001037806	NP_001032895	Q9HCH0	NCK5L_HUMAN	NCK-associated protein 5-like	198	Pro-rich.									central_nervous_system(1)	1						AGAAGCAAGGGGTCAGTCTCT	0.692													8	13	---	---	---	---	PASS
NCKAP5L	57701	broad.mit.edu	37	12	50191040	50191040	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:50191040G>A	uc009zlk.2	-	8	805	c.603C>T	c.(601-603)GAC>GAT	p.D201D	NCKAP5L_uc001rvc.3_5'Flank|NCKAP5L_uc001rvb.2_5'UTR	NM_001037806	NP_001032895	Q9HCH0	NCK5L_HUMAN	NCK-associated protein 5-like	197	Pro-rich.									central_nervous_system(1)	1						GAAGCAAGGGGTCAGTCTCTT	0.692													9	14	---	---	---	---	PASS
DIP2B	57609	broad.mit.edu	37	12	51069214	51069214	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:51069214C>T	uc001rwv.2	+	7	1055	c.899C>T	c.(898-900)TCT>TTT	p.S300F	DIP2B_uc001rwu.2_Missense_Mutation_p.S300F|DIP2B_uc009zls.1_Missense_Mutation_p.S182F	NM_173602	NP_775873	Q9P265	DIP2B_HUMAN	DIP2 disco-interacting protein 2 homolog B	300						nucleus	catalytic activity|transcription factor binding			ovary(4)|breast(1)|pancreas(1)	6						GTGGATGACTCTGAAGAAATT	0.279													8	34	---	---	---	---	PASS
TFCP2	7024	broad.mit.edu	37	12	51510211	51510211	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:51510211G>A	uc001rxw.2	-						TFCP2_uc001rxv.1_Intron|TFCP2_uc009zlx.1_Intron|TFCP2_uc001rxx.2_Intron|TFCP2_uc009zly.1_Intron	NM_005653	NP_005644	Q12800	TFCP2_HUMAN	transcription factor CP2						regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						ACTCTAAAAGGATACAACAAA	0.433													10	18	---	---	---	---	PASS
ACVR1B	91	broad.mit.edu	37	12	52377884	52377884	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:52377884A>T	uc001rzn.2	+	5	955	c.913A>T	c.(913-915)ATT>TTT	p.I305F	ACVR1B_uc001rzl.2_Missense_Mutation_p.I305F|ACVR1B_uc001rzm.2_Missense_Mutation_p.I305F|ACVR1B_uc010snn.1_Missense_Mutation_p.I346F	NM_004302	NP_004293	P36896	ACV1B_HUMAN	activin A receptor, type IB isoform a precursor	305	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			pancreas(4)|breast(2)|ovary(1)|lung(1)|kidney(1)	9				BRCA - Breast invasive adenocarcinoma(357;0.104)	Adenosine triphosphate(DB00171)	TGAGGGGATGATTAAGCTGGC	0.547													4	14	---	---	---	---	PASS
KRT83	3889	broad.mit.edu	37	12	52713029	52713029	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:52713029C>T	uc001saf.2	-	2	567	c.504G>A	c.(502-504)CGG>CGA	p.R168R		NM_002282	NP_002273	P78385	KRT83_HUMAN	keratin 83	168	Rod.|Coil 1B.				epidermis development	keratin filament	structural molecule activity			skin(1)	1	Myeloproliferative disorder(4;0.0484)|all_hematologic(5;0.088)			BRCA - Breast invasive adenocarcinoma(357;0.189)		CGGCCTCCCGCCGCAGAGTCT	0.597													8	32	---	---	---	---	PASS
KRT83	3889	broad.mit.edu	37	12	52713030	52713030	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:52713030C>T	uc001saf.2	-	2	566	c.503G>A	c.(502-504)CGG>CAG	p.R168Q		NM_002282	NP_002273	P78385	KRT83_HUMAN	keratin 83	168	Rod.|Coil 1B.				epidermis development	keratin filament	structural molecule activity			skin(1)	1	Myeloproliferative disorder(4;0.0484)|all_hematologic(5;0.088)			BRCA - Breast invasive adenocarcinoma(357;0.189)		GGCCTCCCGCCGCAGAGTCTC	0.597													8	32	---	---	---	---	PASS
KRT75	9119	broad.mit.edu	37	12	52824496	52824496	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:52824496G>A	uc001saj.2	-							NM_004693	NP_004684	O95678	K2C75_HUMAN	keratin 75							keratin filament	structural molecule activity				0				BRCA - Breast invasive adenocarcinoma(357;0.192)		GCTCCTGCAGGGCAGTAAACT	0.373													28	20	---	---	---	---	PASS
KRT5	3852	broad.mit.edu	37	12	52913697	52913697	+	Silent	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:52913697A>G	uc001san.2	-	1	547	c.384T>C	c.(382-384)GGT>GGC	p.G128G	KRT5_uc009zmh.2_Silent_p.G128G	NM_000424	NP_000415	P13647	K2C5_HUMAN	keratin 5	128	Head.|Gly-rich.				epidermis development|hemidesmosome assembly	cytosol|keratin filament	protein binding|structural constituent of cytoskeleton				0				BRCA - Breast invasive adenocarcinoma(357;0.189)		AGCCAGGGCCACCGAAGccac	0.313													6	26	---	---	---	---	PASS
KRT71	112802	broad.mit.edu	37	12	52942523	52942523	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:52942523C>T	uc001sao.2	-	4	845	c.775G>A	c.(775-777)GAC>AAC	p.D259N		NM_033448	NP_258259	Q3SY84	K2C71_HUMAN	keratin 71	259	Coil 1B.|Rod.						structural molecule activity			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(357;0.194)		ATCTCCTGGTCCATGGATTCC	0.527													9	41	---	---	---	---	PASS
KRT73	319101	broad.mit.edu	37	12	53008396	53008396	+	Silent	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:53008396T>A	uc001sas.2	-	4	821	c.786A>T	c.(784-786)GGA>GGT	p.G262G		NM_175068	NP_778238	Q86Y46	K2C73_HUMAN	keratin 73	262	Coil 1B.|Rod.					keratin filament	structural molecule activity			large_intestine(2)|ovary(2)|skin(2)	6				BRCA - Breast invasive adenocarcinoma(357;0.189)		ACTTGATTTCTCCATCCAGGG	0.532													5	22	---	---	---	---	PASS
KRT73	319101	broad.mit.edu	37	12	53008398	53008398	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:53008398C>T	uc001sas.2	-	4	819	c.784G>A	c.(784-786)GGA>AGA	p.G262R		NM_175068	NP_778238	Q86Y46	K2C73_HUMAN	keratin 73	262	Coil 1B.|Rod.					keratin filament	structural molecule activity			large_intestine(2)|ovary(2)|skin(2)	6				BRCA - Breast invasive adenocarcinoma(357;0.189)		TTGATTTCTCCATCCAGGGCA	0.532													5	23	---	---	---	---	PASS
KRT76	51350	broad.mit.edu	37	12	53170489	53170489	+	Missense_Mutation	SNP	G	A	A	rs138159446	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:53170489G>A	uc001sax.2	-	1	641	c.587C>T	c.(586-588)TCC>TTC	p.S196F		NM_015848	NP_056932	Q01546	K22O_HUMAN	keratin 76	196	Coil 1A.|Rod.				cytoskeleton organization	keratin filament	structural molecule activity			breast(1)|skin(1)	2						GTCGATGAAGGAGGCAAACTT	0.488													38	39	---	---	---	---	PASS
KRT4	3851	broad.mit.edu	37	12	53207610	53207610	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:53207610C>T	uc001saz.2	-	1	726	c.455G>A	c.(454-456)GGA>GAA	p.G152E		NM_002272	NP_002263	B4DRS2	B4DRS2_HUMAN	keratin 4	78						keratin filament	structural molecule activity			ovary(4)|skin(2)	6						GCCAAAGCCTCCAGCACCCCC	0.607													27	41	---	---	---	---	PASS
KRT79	338785	broad.mit.edu	37	12	53227802	53227802	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:53227802C>T	uc001sbb.2	-	1	276	c.243G>A	c.(241-243)TTG>TTA	p.L81L		NM_175834	NP_787028	Q5XKE5	K2C79_HUMAN	keratin 6L	81	Head.					keratin filament	structural molecule activity			ovary(2)|skin(2)	4						GAGCCCGCCCCAACAAGGCCC	0.647													18	10	---	---	---	---	PASS
KRT18	3875	broad.mit.edu	37	12	53345606	53345606	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:53345606C>T	uc001sbe.2	+	6	983	c.914C>T	c.(913-915)TCC>TTC	p.S305F	KRT18_uc009zmn.1_Missense_Mutation_p.S305F|KRT18_uc001sbf.1_Missense_Mutation_p.S132F|KRT18_uc001sbg.2_Missense_Mutation_p.S305F|KRT18_uc009zmo.2_Missense_Mutation_p.S305F|KRT8_uc009zml.1_5'Flank|KRT8_uc009zmm.1_5'Flank	NM_199187	NP_954657	P05783	K1C18_HUMAN	keratin 18	305	Interaction with DNAJB6.|Coil 2.|Rod.|Necessary for interaction with PNN.				anatomical structure morphogenesis|cell cycle|Golgi to plasma membrane CFTR protein transport|interspecies interaction between organisms|negative regulation of apoptosis	centriolar satellite|keratin filament|perinuclear region of cytoplasm	protein binding|structural molecule activity			skin(1)	1						ACAGTCCAGTCCTTGGAGATC	0.557													5	32	---	---	---	---	PASS
ESPL1	9700	broad.mit.edu	37	12	53677227	53677227	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:53677227G>A	uc001sck.2	+	16	3073	c.2982G>A	c.(2980-2982)CTG>CTA	p.L994L	ESPL1_uc001scj.2_Silent_p.L669L|ESPL1_uc010soe.1_Silent_p.L205L	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	994					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding			lung(1)|kidney(1)|skin(1)	3						CAGAGAAGCTGGTCTGCCACC	0.512													41	58	---	---	---	---	PASS
ESPL1	9700	broad.mit.edu	37	12	53680087	53680087	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:53680087G>T	uc001sck.2	+	18	3658	c.3567G>T	c.(3565-3567)AAG>AAT	p.K1189N	ESPL1_uc001scj.2_Missense_Mutation_p.K864N|ESPL1_uc010soe.1_Intron	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	1189					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding			lung(1)|kidney(1)|skin(1)	3						TCGTGCTGAAGGGCTGTCCTG	0.597													5	53	---	---	---	---	PASS
ESPL1	9700	broad.mit.edu	37	12	53682974	53682974	+	Silent	SNP	C	T	T	rs145634647		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:53682974C>T	uc001sck.2	+	21	4900	c.4809C>T	c.(4807-4809)TTC>TTT	p.F1603F	ESPL1_uc001scj.2_Silent_p.F1278F	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase	1603					apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding	p.F1603F(1)		lung(1)|kidney(1)|skin(1)	3						TCTGCCGCTTCCTGGCCTTGT	0.592													41	57	---	---	---	---	PASS
ESPL1	9700	broad.mit.edu	37	12	53686056	53686056	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:53686056C>T	uc001sck.2	+						ESPL1_uc001scj.2_Intron	NM_012291	NP_036423	Q14674	ESPL1_HUMAN	separase						apoptosis|cytokinesis|establishment of mitotic spindle localization|mitotic sister chromatid segregation|negative regulation of sister chromatid cohesion|positive regulation of mitotic metaphase/anaphase transition|proteolysis	centrosome|nucleus	cysteine-type peptidase activity|protein binding			lung(1)|kidney(1)|skin(1)	3						AGTGTCTCCTCCTCAGTATGG	0.537													8	38	---	---	---	---	PASS
SP7	121340	broad.mit.edu	37	12	53722687	53722687	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:53722687C>T	uc001sct.2	-	2	646	c.539G>A	c.(538-540)GGG>GAG	p.G180E	SP7_uc001scu.2_Missense_Mutation_p.G162E|SP7_uc001scv.2_Missense_Mutation_p.G180E	NM_152860	NP_690599	Q8TDD2	SP7_HUMAN	osterix	180					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGGCAGTGTCCCTTGCAGCCC	0.622													3	7	---	---	---	---	PASS
AMHR2	269	broad.mit.edu	37	12	53824998	53824998	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:53824998G>T	uc001scx.1	+	11	1541	c.1463G>T	c.(1462-1464)TGG>TTG	p.W488L	AMHR2_uc009zmy.1_3'UTR	NM_020547	NP_065434	Q16671	AMHR2_HUMAN	anti-Mullerian hormone receptor, type II isoform	488	Cytoplasmic (Potential).|Protein kinase.				Mullerian duct regression		ATP binding|hormone binding|metal ion binding			ovary(1)|skin(1)	2					Adenosine triphosphate(DB00171)	GAAGACTGTTGGGATGCAGAC	0.592									Persistant_Mullerian_Duct_Syndrome_(type_I_and_II)				4	61	---	---	---	---	PASS
MAP3K12	7786	broad.mit.edu	37	12	53879205	53879205	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:53879205C>T	uc001sdm.1	-	6	875	c.777G>A	c.(775-777)AAG>AAA	p.K259K	MAP3K12_uc001sdn.1_Silent_p.K292K	NM_006301	NP_006292	Q12852	M3K12_HUMAN	mitogen-activated protein kinase kinase kinase	259	Protein kinase.				histone phosphorylation|JNK cascade|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation	cytosol|membrane fraction|plasma membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			lung(2)|ovary(1)|breast(1)|skin(1)	5						CACTCAGCTCCTTGGAAGTGC	0.532													63	99	---	---	---	---	PASS
MAP3K12	7786	broad.mit.edu	37	12	53879942	53879942	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:53879942G>A	uc001sdm.1	-	5	718	c.620C>T	c.(619-621)CCT>CTT	p.P207L	MAP3K12_uc001sdn.1_Missense_Mutation_p.P240L	NM_006301	NP_006292	Q12852	M3K12_HUMAN	mitogen-activated protein kinase kinase kinase	207	Protein kinase.				histone phosphorylation|JNK cascade|peptidyl-serine phosphorylation|peptidyl-threonine phosphorylation|protein autophosphorylation	cytosol|membrane fraction|plasma membrane	ATP binding|magnesium ion binding|MAP kinase kinase kinase activity|protein homodimerization activity|protein kinase binding			lung(2)|ovary(1)|breast(1)|skin(1)	5						GGGGGTGACAGGGCGGCCAGC	0.607													10	25	---	---	---	---	PASS
HOXC11	3227	broad.mit.edu	37	12	54368958	54368958	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:54368958C>T	uc001sem.2	+							NM_014212	NP_055027	O43248	HXC11_HUMAN	homeobox C11						endoderm development	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						CCCTCCCCTCCCTCCAGACGC	0.627			T	NUP98	AML								10	13	---	---	---	---	PASS
NCKAP1L	3071	broad.mit.edu	37	12	54902318	54902318	+	Intron	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:54902318G>T	uc001sgc.3	+						NCKAP1L_uc010sox.1_Intron|NCKAP1L_uc010soy.1_Intron	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like						actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						GGGCATGGGTGAGTTAAGGCG	0.428													5	111	---	---	---	---	PASS
NCKAP1L	3071	broad.mit.edu	37	12	54929930	54929930	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:54929930G>A	uc001sgc.3	+	28	3053	c.2974G>A	c.(2974-2976)GAG>AAG	p.E992K	NCKAP1L_uc010sox.1_Missense_Mutation_p.E534K|NCKAP1L_uc010soy.1_Missense_Mutation_p.E942K	NM_005337	NP_005328	P55160	NCKPL_HUMAN	NCK-associated protein 1-like	992					actin polymerization-dependent cell motility|B cell homeostasis|B cell receptor signaling pathway|cortical actin cytoskeleton organization|erythrocyte development|maintenance of cell polarity|myeloid cell homeostasis|negative regulation of apoptosis|negative regulation of interleukin-17 production|negative regulation of interleukin-6 production|negative regulation of myosin-light-chain-phosphatase activity|neutrophil chemotaxis|positive regulation of actin filament polymerization|positive regulation of B cell differentiation|positive regulation of B cell proliferation|positive regulation of CD4-positive, alpha-beta T cell differentiation|positive regulation of CD8-positive, alpha-beta T cell differentiation|positive regulation of cell adhesion mediated by integrin|positive regulation of erythrocyte differentiation|positive regulation of gamma-delta T cell differentiation|positive regulation of neutrophil chemotaxis|positive regulation of phagocytosis, engulfment|positive regulation of T cell proliferation|protein complex assembly|response to drug|T cell homeostasis	cytosol|integral to plasma membrane|membrane fraction|SCAR complex	protein complex binding|protein kinase activator activity|Rac GTPase activator activity			ovary(3)|central_nervous_system(1)	4						ATCTCCTGAGGAGGAATATAA	0.428													19	17	---	---	---	---	PASS
PDE1B	5153	broad.mit.edu	37	12	54971076	54971076	+	Silent	SNP	C	G	G	rs150107941		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:54971076C>G	uc001sgd.1	+	15	1741	c.1575C>G	c.(1573-1575)GCC>GCG	p.A525A	PDE1B_uc010soz.1_Silent_p.A388A|PDE1B_uc010spa.1_Silent_p.A484A|PDE1B_uc001sgf.2_Silent_p.A388A|PDE1B_uc001sge.2_Silent_p.A505A|PDE1B_uc009znq.2_Silent_p.A321A	NM_000924	NP_000915	Q01064	PDE1B_HUMAN	phosphodiesterase 1B isoform 1	525					activation of phospholipase C activity|apoptosis|nerve growth factor receptor signaling pathway|platelet activation	cytosol|nucleus	3',5'-cyclic-AMP phosphodiesterase activity|calmodulin binding|calmodulin-dependent cyclic-nucleotide phosphodiesterase activity|metal ion binding			upper_aerodigestive_tract(1)|ovary(1)	2						CATCCCCTGCCGAAGATGAAC	0.567													41	48	---	---	---	---	PASS
LACRT	90070	broad.mit.edu	37	12	55026954	55026954	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:55026954G>A	uc001sgi.1	-							NM_033277	NP_150593	Q9GZZ8	LACRT_HUMAN	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						GCAGGGAGAGGAGGACTCACA	0.572													12	78	---	---	---	---	PASS
NEUROD4	58158	broad.mit.edu	37	12	55420286	55420286	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:55420286G>A	uc001sgp.3	+	2	441	c.63G>A	c.(61-63)ATG>ATA	p.M21I		NM_021191	NP_067014	Q9HD90	NDF4_HUMAN	neurogenic differentiation 4	21					amacrine cell differentiation|positive regulation of cell differentiation|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding			ovary(3)|skin(1)	4						CATCCTGGATGGATAAAGGTC	0.428													28	28	---	---	---	---	PASS
OR10A7	121364	broad.mit.edu	37	12	55615268	55615268	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:55615268C>T	uc010spf.1	+	1	460	c.460C>T	c.(460-462)CCT>TCT	p.P154S		NM_001005280	NP_001005280	Q8NGE5	O10A7_HUMAN	olfactory receptor, family 10, subfamily A,	154	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(4)	4						GTCCGGTGTTCCTGTGTCTAT	0.488													36	42	---	---	---	---	PASS
OR6C74	254783	broad.mit.edu	37	12	55641500	55641500	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:55641500C>T	uc010spg.1	+	1	429	c.429C>T	c.(427-429)GTC>GTT	p.V143V		NM_001005490	NP_001005490	A6NCV1	O6C74_HUMAN	olfactory receptor, family 6, subfamily C,	143	Helical; Name=4; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1						GCTTGCTGGTCTTTGCTTCAT	0.483													30	24	---	---	---	---	PASS
OR6C1	390321	broad.mit.edu	37	12	55714785	55714785	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:55714785G>A	uc010spi.1	+	1	402	c.402G>A	c.(400-402)ATG>ATA	p.M134I		NM_001005182	NP_001005182	Q96RD1	OR6C1_HUMAN	olfactory receptor, family 6, subfamily C,	134	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2						TGAGTATCATGAATCGAAGAG	0.428													14	20	---	---	---	---	PASS
OR6C1	390321	broad.mit.edu	37	12	55715295	55715295	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:55715295G>A	uc010spi.1	+	1	912	c.912G>A	c.(910-912)AGG>AGA	p.R304R		NM_001005182	NP_001005182	Q96RD1	OR6C1_HUMAN	olfactory receptor, family 6, subfamily C,	304	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			large_intestine(1)|ovary(1)	2						ACATGGCAAGGAAGACTGTAT	0.388													38	69	---	---	---	---	PASS
OR6C2	341416	broad.mit.edu	37	12	55846129	55846129	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:55846129C>T	uc001sgz.1	+	1	132	c.132C>T	c.(130-132)ATC>ATT	p.I44I		NM_054105	NP_473446	Q9NZP2	OR6C2_HUMAN	olfactory receptor, family 6, subfamily C,	44	Helical; Name=1; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						TGACTATTATCACCCTCACAT	0.423													24	30	---	---	---	---	PASS
OR6C2	341416	broad.mit.edu	37	12	55846263	55846263	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:55846263C>T	uc001sgz.1	+	1	266	c.266C>T	c.(265-267)ACC>ATC	p.T89I		NM_054105	NP_473446	Q9NZP2	OR6C2_HUMAN	olfactory receptor, family 6, subfamily C,	89	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)	2						GGGGACAATACCATTACCTAC	0.378													8	82	---	---	---	---	PASS
OR6C70	390327	broad.mit.edu	37	12	55863430	55863430	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:55863430C>T	uc010spn.1	-	1	493	c.493G>A	c.(493-495)GAT>AAT	p.D165N		NM_001005499	NP_001005499	A6NIJ9	O6C70_HUMAN	olfactory receptor, family 6, subfamily C,	165	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(1)	1						GCACAGAAATCCAAGTTAAGA	0.368													10	46	---	---	---	---	PASS
OR6C4	341418	broad.mit.edu	37	12	55945068	55945068	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:55945068G>A	uc010spp.1	+	1	58	c.58G>A	c.(58-60)GAA>AAA	p.E20K		NM_001005494	NP_001005494	Q8NGE1	OR6C4_HUMAN	olfactory receptor, family 6, subfamily C,	20	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AAATCAACCTGAACTCCAAGT	0.408													44	49	---	---	---	---	PASS
RDH5	5959	broad.mit.edu	37	12	56118299	56118299	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:56118299C>T	uc001shk.2	+	5	1110	c.927C>T	c.(925-927)GTC>GTT	p.V309V	RDH5_uc001shl.2_Silent_p.V309V	NM_002905	NP_002896	Q92781	RDH1_HUMAN	retinol dehydrogenase 5 (11-cis and 9-cis)	309					response to stimulus|visual perception	membrane	binding|retinol dehydrogenase activity			ovary(1)	1					NADH(DB00157)|Vitamin A(DB00162)	TCACCTGGGTCCTTCCCAAGC	0.577											OREG0021908	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	32	---	---	---	---	PASS
DGKA	1606	broad.mit.edu	37	12	56346688	56346688	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:56346688C>T	uc001sij.2	+	21	2178	c.1914C>T	c.(1912-1914)GAC>GAT	p.D638D	DGKA_uc009zod.1_Silent_p.D557D|DGKA_uc001sik.2_Silent_p.D638D|DGKA_uc001sil.2_Silent_p.D638D|DGKA_uc001sim.2_Silent_p.D638D|DGKA_uc001sin.2_Silent_p.D638D|DGKA_uc009zof.2_Silent_p.D284D|DGKA_uc001sio.2_Silent_p.D380D	NM_001345	NP_001336	P23743	DGKA_HUMAN	diacylglycerol kinase, alpha 80kDa	638					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)	TCATCACCGACCCTGATATCC	0.552													18	71	---	---	---	---	PASS
PAN2	9924	broad.mit.edu	37	12	56718474	56718474	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:56718474G>A	uc001skx.2	-	11	1992	c.1619C>T	c.(1618-1620)CCT>CTT	p.P540L	PAN2_uc001skw.2_5'Flank|PAN2_uc001skz.2_Missense_Mutation_p.P540L|PAN2_uc001sky.2_Missense_Mutation_p.P540L	NM_001127460	NP_001120932	Q504Q3	PAN2_HUMAN	PAN2 polyA specific ribonuclease subunit homolog	540					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						ACAGCGTACAGGCTCCAGGAA	0.507													3	34	---	---	---	---	PASS
APOF	319	broad.mit.edu	37	12	56755840	56755840	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:56755840G>A	uc001sle.1	-	2	204	c.150C>T	c.(148-150)CCC>CCT	p.P50P		NM_001638	NP_001629	Q13790	APOF_HUMAN	apolipoprotein F precursor	50					cholesterol metabolic process	high-density lipoprotein particle|low-density lipoprotein particle	cholesterol binding|lipid transporter activity|receptor binding				0						CCAAGGACAAGGGAAAGTGCA	0.517													12	94	---	---	---	---	PASS
APOF	319	broad.mit.edu	37	12	56755841	56755841	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:56755841G>A	uc001sle.1	-	2	203	c.149C>T	c.(148-150)CCC>CTC	p.P50L		NM_001638	NP_001629	Q13790	APOF_HUMAN	apolipoprotein F precursor	50					cholesterol metabolic process	high-density lipoprotein particle|low-density lipoprotein particle	cholesterol binding|lipid transporter activity|receptor binding				0						CAAGGACAAGGGAAAGTGCAT	0.522													12	95	---	---	---	---	PASS
BAZ2A	11176	broad.mit.edu	37	12	57000518	57000518	+	Splice_Site	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57000518C>T	uc001slq.1	-	11	2293	c.2099_splice	c.e11-1	p.E700_splice	BAZ2A_uc001slp.1_Splice_Site_p.E698_splice|BAZ2A_uc009zow.1_Splice_Site_p.E668_splice	NM_013449	NP_038477	Q9UIF9	BAZ2A_HUMAN	bromodomain adjacent to zinc finger domain, 2A						chromatin silencing at rDNA|DNA methylation|transcription, DNA-dependent	chromatin silencing complex|nucleolus|rDNA heterochromatin	DNA binding|histone acetyl-lysine binding|ligand-dependent nuclear receptor binding|RNA binding|zinc ion binding				0						TTCAATGTTTCTGTGAGAGCA	0.478													79	77	---	---	---	---	PASS
BAZ2A	11176	broad.mit.edu	37	12	57005682	57005682	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57005682G>A	uc001slq.1	-	6	1684	c.1490C>T	c.(1489-1491)CCC>CTC	p.P497L	BAZ2A_uc001slp.1_Missense_Mutation_p.P495L|BAZ2A_uc009zow.1_Missense_Mutation_p.P465L	NM_013449	NP_038477	Q9UIF9	BAZ2A_HUMAN	bromodomain adjacent to zinc finger domain, 2A	497					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						GGAAGTTACGGGAGAGGCTTT	0.542													3	19	---	---	---	---	PASS
NACA	4666	broad.mit.edu	37	12	57111742	57111742	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57111742G>A	uc001slz.2	-						NACA_uc001sly.2_Intron|NACA_uc009zoy.1_Missense_Mutation_p.P1191L|NACA_uc001smc.2_Intron|NACA_uc001sma.2_Intron|NACA_uc001smb.2_Intron|NACA_uc010squ.1_Intron	NM_001113201	NP_001106672	Q13765	NACA_HUMAN	nascent polypeptide-associated complex alpha						interspecies interaction between organisms|protein transport|transcription, DNA-dependent|translation	nascent polypeptide-associated complex|nucleus	DNA binding			ovary(1)	1						GGCCCCTTTGGGGGATGGGGT	0.627			T	BCL6	NHL								25	34	---	---	---	---	PASS
NACA	4666	broad.mit.edu	37	12	57112302	57112302	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57112302G>A	uc001slz.2	-						NACA_uc001sly.2_Intron|NACA_uc009zoy.1_Silent_p.S1004S|NACA_uc001smc.2_Intron|NACA_uc001sma.2_Intron|NACA_uc001smb.2_Intron|NACA_uc010squ.1_Intron	NM_001113201	NP_001106672	Q13765	NACA_HUMAN	nascent polypeptide-associated complex alpha						interspecies interaction between organisms|protein transport|transcription, DNA-dependent|translation	nascent polypeptide-associated complex|nucleus	DNA binding			ovary(1)	1						CCCCTTTGGGGGATGGAGTAG	0.652			T	BCL6	NHL								13	20	---	---	---	---	PASS
MYO1A	4640	broad.mit.edu	37	12	57423021	57423021	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57423021C>T	uc001smw.3	-	27	3143	c.2900G>A	c.(2899-2901)GGG>GAG	p.G967E	MYO1A_uc010sqz.1_Missense_Mutation_p.G805E|MYO1A_uc009zpd.2_Missense_Mutation_p.G967E	NM_005379	NP_005370	Q9UBC5	MYO1A_HUMAN	myosin IA	967					sensory perception of sound|vesicle localization	brush border|cortical actin cytoskeleton|filamentous actin|lateral plasma membrane|microvillus|myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|urinary_tract(1)	7						CAGGAAGTCCCCCTTGGAGCC	0.527													26	26	---	---	---	---	PASS
MYO1A	4640	broad.mit.edu	37	12	57440417	57440417	+	Nonsense_Mutation	SNP	G	A	A	rs146269737		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57440417G>A	uc001smw.3	-	8	802	c.559C>T	c.(559-561)CGA>TGA	p.R187*	MYO1A_uc010sqz.1_Nonsense_Mutation_p.R25*|MYO1A_uc009zpd.2_Nonsense_Mutation_p.R187*	NM_005379	NP_005370	Q9UBC5	MYO1A_HUMAN	myosin IA	187	Myosin head-like.				sensory perception of sound|vesicle localization	brush border|cortical actin cytoskeleton|filamentous actin|lateral plasma membrane|microvillus|myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			skin(4)|ovary(2)|urinary_tract(1)	7						TTCACTAATCGGGATTTCTCA	0.502													33	36	---	---	---	---	PASS
MIR1228	100302201	broad.mit.edu	37	12	57588348	57588348	+	RNA	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57588348C>T	hsa-mir-1228|MI0006318	+			c.62C>T			LRP1_uc001snd.2_Intron																	0						TCACACCTGCCTCGCCCCCCA	0.642													17	15	---	---	---	---	PASS
STAC3	246329	broad.mit.edu	37	12	57638117	57638117	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57638117G>A	uc001snp.2	-	10	1034	c.839C>T	c.(838-840)TCC>TTC	p.S280F	STAC3_uc009zpl.2_5'UTR|STAC3_uc001snq.2_Missense_Mutation_p.S241F|STAC3_uc010srm.1_Missense_Mutation_p.S94F	NM_145064	NP_659501	Q96MF2	STAC3_HUMAN	SH3 and cysteine rich domain 3	280	SH3 1.				intracellular signal transduction		identical protein binding|metal ion binding			ovary(2)|skin(1)	3						TTCTTCATTGGAGTCATCAAT	0.567											OREG0021942	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	24	24	---	---	---	---	PASS
STAC3	246329	broad.mit.edu	37	12	57638409	57638409	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57638409G>A	uc001snp.2	-						STAC3_uc009zpl.2_Intron|STAC3_uc001snq.2_Intron|STAC3_uc010srm.1_Intron	NM_145064	NP_659501	Q96MF2	STAC3_HUMAN	SH3 and cysteine rich domain 3						intracellular signal transduction		identical protein binding|metal ion binding			ovary(2)|skin(1)	3						GCTTGTGCTGGGGGTGCAAGG	0.547													62	60	---	---	---	---	PASS
ARHGAP9	64333	broad.mit.edu	37	12	57873026	57873026	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57873026C>T	uc001sod.2	-	5	570	c.377G>A	c.(376-378)CGA>CAA	p.R126Q	ARHGAP9_uc001snz.2_5'Flank|ARHGAP9_uc001soa.2_5'Flank|ARHGAP9_uc001sob.2_Missense_Mutation_p.R55Q|ARHGAP9_uc001soc.2_Missense_Mutation_p.R55Q|ARHGAP9_uc001soe.1_Missense_Mutation_p.R134Q|ARHGAP9_uc010sro.1_Missense_Mutation_p.R55Q	NM_032496	NP_115885	Q9BRR9	RHG09_HUMAN	Rho GTPase activating protein 9 isoform 1	55	SH3.				regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity|protein binding			lung(1)	1			GBM - Glioblastoma multiforme(3;3.37e-34)			GTTGGTCTTTCGAAGCAGTAG	0.557													10	47	---	---	---	---	PASS
KIF5A	3798	broad.mit.edu	37	12	57963034	57963034	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:57963034C>T	uc001sor.1	+						KIF5A_uc010srr.1_Intron	NM_004984	NP_004975	Q12840	KIF5A_HUMAN	kinesin family member 5A						blood coagulation|cell death|microtubule-based movement|synaptic transmission	cytosol|kinesin complex|membrane fraction|microtubule|perinuclear region of cytoplasm	ATP binding|microtubule motor activity			ovary(2)|skin(1)	3						TCCTTCCTCCCCCAGAAAAGC	0.468													10	45	---	---	---	---	PASS
GEFT	115557	broad.mit.edu	37	12	58010570	58010570	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:58010570C>T	uc001spb.2	+	15	2096	c.1636C>T	c.(1636-1638)CTT>TTT	p.L546F	GEFT_uc009zpy.2_Missense_Mutation_p.L585F|GEFT_uc001spa.2_Missense_Mutation_p.L440F|uc001spc.2_Intron|GEFT_uc001spd.2_Missense_Mutation_p.L251F	NM_182947	NP_891992	Q86VW2	ARHGP_HUMAN	RhoA/RAC/CDC42 exchange factor isoform 1	546					regulation of Rho protein signal transduction	cytosol|plasma membrane|sarcomere	Rho guanyl-nucleotide exchange factor activity				0	Melanoma(17;0.122)					TCTTCAGGCCCTTGGTGACAT	0.507													53	74	---	---	---	---	PASS
OS9	10956	broad.mit.edu	37	12	58112049	58112049	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:58112049G>A	uc001spj.2	+	11	1314	c.1255G>A	c.(1255-1257)GAG>AAG	p.E419K	OS9_uc010srx.1_Missense_Mutation_p.E213K|OS9_uc001spk.2_Missense_Mutation_p.E419K|OS9_uc001spl.2_Missense_Mutation_p.E419K|OS9_uc001spm.2_Missense_Mutation_p.E419K|OS9_uc001spn.2_Missense_Mutation_p.E420K|OS9_uc010sry.1_Missense_Mutation_p.E387K|OS9_uc010srz.1_Missense_Mutation_p.E360K	NM_006812	NP_006803	Q13438	OS9_HUMAN	osteosarcoma amplified 9, endoplasmic reticulum	419	Asp/Glu-rich (acidic).				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)			agaggaggatgaggatgagga	0.398													5	34	---	---	---	---	PASS
AGAP2	116986	broad.mit.edu	37	12	58125160	58125160	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:58125160G>A	uc001spq.2	-	10	2134	c.2134C>T	c.(2134-2136)CCC>TCC	p.P712S	AGAP2_uc001spp.2_Missense_Mutation_p.P712S|AGAP2_uc001spr.2_Missense_Mutation_p.P376S	NM_001122772	NP_001116244	Q99490	AGAP2_HUMAN	centaurin, gamma 1 isoform PIKE-L	712	PH.				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						TTAATACTGGGGTGGTAGAGT	0.453													24	41	---	---	---	---	PASS
LRIG3	121227	broad.mit.edu	37	12	59274433	59274433	+	Silent	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:59274433C>A	uc001sqr.2	-	13	1977	c.1731G>T	c.(1729-1731)GGG>GGT	p.G577G	LRIG3_uc009zqh.2_Silent_p.G517G|LRIG3_uc010ssh.1_RNA	NM_153377	NP_700356	Q6UXM1	LRIG3_HUMAN	leucine-rich repeats and immunoglobulin-like	577	Ig-like C2-type 1.					integral to membrane				skin(3)|ovary(1)	4			GBM - Glioblastoma multiforme(1;1.17e-18)			ACTGATATTTCCCCTCACTGG	0.463													7	41	---	---	---	---	PASS
SLC16A7	9194	broad.mit.edu	37	12	60168610	60168610	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:60168610C>T	uc001sqs.2	+	5	833	c.534C>T	c.(532-534)TTC>TTT	p.F178F	SLC16A7_uc001sqt.2_Silent_p.F178F|SLC16A7_uc001squ.2_Silent_p.F178F|SLC16A7_uc009zqi.2_Silent_p.F79F|SLC16A7_uc010ssi.1_Silent_p.F79F	NM_004731	NP_004722	O60669	MOT2_HUMAN	solute carrier family 16, member 7	178	Helical; (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)	AAGGAAGCTTCCTGATTTTGG	0.428													8	13	---	---	---	---	PASS
SRGAP1	57522	broad.mit.edu	37	12	64377732	64377732	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:64377732C>T	uc010ssp.1	+	2	129	c.73C>T	c.(73-75)CGA>TGA	p.R25*	SRGAP1_uc001srt.2_Nonsense_Mutation_p.R25*|SRGAP1_uc001srv.2_5'UTR	NM_020762	NP_065813	Q7Z6B7	SRGP1_HUMAN	SLIT-ROBO Rho GTPase activating protein 1	25	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)		CTTAGAAATTCGAGCTCAACT	0.383													12	47	---	---	---	---	PASS
XPOT	11260	broad.mit.edu	37	12	64814175	64814175	+	Silent	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:64814175A>T	uc001ssb.2	+	8	1143	c.717A>T	c.(715-717)CTA>CTT	p.L239L	XPOT_uc009zqm.1_Silent_p.L149L	NM_007235	NP_009166	O43592	XPOT_HUMAN	tRNA exportin	239	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)		TAGAAGTTCTACGGGAAGAAG	0.323													13	30	---	---	---	---	PASS
XPOT	11260	broad.mit.edu	37	12	64814176	64814176	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:64814176C>T	uc001ssb.2	+	8	1144	c.718C>T	c.(718-720)CGG>TGG	p.R240W	XPOT_uc009zqm.1_Missense_Mutation_p.R150W	NM_007235	NP_009166	O43592	XPOT_HUMAN	tRNA exportin	240	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)		AGAAGTTCTACGGGAAGAAGC	0.328													13	30	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	12	66501892	66501892	+	IGR	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:66501892G>A								HMGA2 (141824 upstream) : LLPH (14958 downstream)																							CTGACCATTGGAAACTCTGCT	0.537											OREG0021973	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	49	---	---	---	---	PASS
HELB	92797	broad.mit.edu	37	12	66700216	66700216	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:66700216A>G	uc001sti.2	+	3	727	c.699A>G	c.(697-699)ATA>ATG	p.I233M	HELB_uc010ssz.1_RNA|HELB_uc009zqt.1_RNA	NM_033647	NP_387467	Q8NG08	HELB_HUMAN	helicase (DNA) B	233					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)		AATGGATCATAGGGTCAGGTT	0.368													6	47	---	---	---	---	PASS
GRIP1	23426	broad.mit.edu	37	12	66771034	66771034	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:66771034C>T	uc001stk.2	-	20	2738	c.2497G>A	c.(2497-2499)GAA>AAA	p.E833K	GRIP1_uc010sta.1_Missense_Mutation_p.E777K|GRIP1_uc001stj.2_Missense_Mutation_p.E615K|GRIP1_uc001stl.1_Missense_Mutation_p.E725K|GRIP1_uc001stm.2_Missense_Mutation_p.E833K	NM_021150	NP_066973	Q9Y3R0	GRIP1_HUMAN	glutamate receptor interacting protein 1	885					androgen receptor signaling pathway|intracellular signal transduction|positive regulation of transcription, DNA-dependent|synaptic transmission	cell junction|cytoplasmic membrane-bounded vesicle|cytosol|endoplasmic reticulum|postsynaptic membrane	androgen receptor binding|beta-catenin binding|protein C-terminus binding|receptor signaling complex scaffold activity|transcription coactivator activity			ovary(2)	2			GBM - Glioblastoma multiforme(2;0.00069)	GBM - Glioblastoma multiforme(28;0.0933)		TCCTCTTGTTCTGTCTCTGCA	0.448													62	84	---	---	---	---	PASS
IL22	50616	broad.mit.edu	37	12	68646567	68646567	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:68646567C>T	uc001sty.1	-	2	282	c.229G>A	c.(229-231)GAG>AAG	p.E77K	IL22_uc010stb.1_Missense_Mutation_p.E77K	NM_020525	NP_065386	Q9GZX6	IL22_HUMAN	interleukin 22 precursor	77					acute-phase response	extracellular space	cytokine activity|interleukin-22 receptor binding				0		Myeloproliferative disorder(1001;0.0255)	Lung(24;0.000131)|LUAD - Lung adenocarcinoma(15;0.00107)|STAD - Stomach adenocarcinoma(21;0.018)	GBM - Glioblastoma multiforme(7;5.06e-05)|BRCA - Breast invasive adenocarcinoma(357;0.00104)		AACAGTTTCTCCCCAATGAGA	0.468													27	34	---	---	---	---	PASS
PTPRB	5787	broad.mit.edu	37	12	70946555	70946555	+	Splice_Site	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:70946555A>G	uc001swb.3	-	19	4763	c.4733_splice	c.e19+1	p.R1578_splice	PTPRB_uc010sto.1_Splice_Site_p.R1488_splice|PTPRB_uc010stp.1_Splice_Site_p.R1488_splice|PTPRB_uc001swc.3_Splice_Site_p.R1796_splice|PTPRB_uc001swa.3_Splice_Site_p.R1708_splice	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B						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)			AATATATCTAACCTGTAGGCA	0.448													18	20	---	---	---	---	PASS
PTPRB	5787	broad.mit.edu	37	12	70954712	70954712	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:70954712G>A	uc001swb.3	-	15	3547	c.3517C>T	c.(3517-3519)CCA>TCA	p.P1173S	PTPRB_uc010sto.1_Missense_Mutation_p.P1083S|PTPRB_uc010stp.1_Missense_Mutation_p.P1083S|PTPRB_uc001swc.3_Missense_Mutation_p.P1391S|PTPRB_uc001swa.3_Missense_Mutation_p.P1303S|PTPRB_uc001swd.3_Missense_Mutation_p.P1390S|PTPRB_uc009zrr.1_Missense_Mutation_p.P1270S	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	1173	Fibronectin type-III 14.|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)			ACAGAGGCTGGGACTTAAACA	0.473													24	116	---	---	---	---	PASS
PTPRB	5787	broad.mit.edu	37	12	70981045	70981045	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:70981045G>A	uc001swb.3	-	7	1429	c.1399C>T	c.(1399-1401)CCC>TCC	p.P467S	PTPRB_uc010sto.1_Missense_Mutation_p.P467S|PTPRB_uc010stp.1_Missense_Mutation_p.P377S|PTPRB_uc001swc.3_Missense_Mutation_p.P685S|PTPRB_uc001swa.3_Missense_Mutation_p.P685S|PTPRB_uc001swd.3_Missense_Mutation_p.P684S|PTPRB_uc009zrr.1_Missense_Mutation_p.P564S	NM_002837	NP_002828	P23467	PTPRB_HUMAN	protein tyrosine phosphatase, receptor type, B	467	Fibronectin type-III 6.|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)			ACAGCCAGGGGGACTGAGGAA	0.458													6	32	---	---	---	---	PASS
PTPRR	5801	broad.mit.edu	37	12	71095095	71095095	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:71095095G>A	uc001swi.1	-	7	1432	c.1016C>T	c.(1015-1017)TCC>TTC	p.S339F	PTPRR_uc001swh.1_Missense_Mutation_p.S94F|PTPRR_uc009zrs.2_Missense_Mutation_p.S188F|PTPRR_uc010stq.1_Missense_Mutation_p.S227F|PTPRR_uc010str.1_Missense_Mutation_p.S188F	NM_002849	NP_002840	Q15256	PTPRR_HUMAN	protein tyrosine phosphatase, receptor type, R	339	Cytoplasmic (Potential).				in utero embryonic development	cell surface|Golgi apparatus|integral to membrane|nucleus|perinuclear region of cytoplasm|plasma membrane	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			skin(2)|ovary(1)	3			GBM - Glioblastoma multiforme(2;5.67e-07)|Lung(24;0.00283)|OV - Ovarian serous cystadenocarcinoma(12;0.00578)|LUSC - Lung squamous cell carcinoma(43;0.132)	COAD - Colon adenocarcinoma(1;0.136)		AGATACGTTGGACCCTCTTCT	0.403													7	35	---	---	---	---	PASS
PTPRR	5801	broad.mit.edu	37	12	71148030	71148030	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:71148030C>T	uc001swi.1	-	5	1095	c.679G>A	c.(679-681)GGA>AGA	p.G227R	PTPRR_uc001swh.1_5'UTR|PTPRR_uc009zrs.2_Missense_Mutation_p.G76R|PTPRR_uc010stq.1_Missense_Mutation_p.G115R|PTPRR_uc010str.1_Missense_Mutation_p.G76R	NM_002849	NP_002840	Q15256	PTPRR_HUMAN	protein tyrosine phosphatase, receptor type, R	227	Extracellular (Potential).				in utero embryonic development	cell surface|Golgi apparatus|integral to membrane|nucleus|perinuclear region of cytoplasm|plasma membrane	protein kinase binding|transmembrane receptor protein tyrosine phosphatase activity			skin(2)|ovary(1)	3			GBM - Glioblastoma multiforme(2;5.67e-07)|Lung(24;0.00283)|OV - Ovarian serous cystadenocarcinoma(12;0.00578)|LUSC - Lung squamous cell carcinoma(43;0.132)	COAD - Colon adenocarcinoma(1;0.136)		GCATAAAATCCTTCTTTGCTC	0.353													9	14	---	---	---	---	PASS
LGR5	8549	broad.mit.edu	37	12	71977894	71977894	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:71977894G>A	uc001swl.2	+	18	2152	c.2104G>A	c.(2104-2106)GGT>AGT	p.G702S	LGR5_uc001swm.2_Missense_Mutation_p.G678S|LGR5_uc001swn.1_Intron	NM_003667	NP_003658	O75473	LGR5_HUMAN	leucine-rich repeat-containing G protein-coupled	702	Helical; Name=4; (Potential).					integral to plasma membrane	protein-hormone receptor activity			lung(4)|skin(3)|ovary(1)|pancreas(1)	9						TCCCCTGCTGGGTGGCAGCAA	0.537													17	89	---	---	---	---	PASS
THAP2	83591	broad.mit.edu	37	12	72070878	72070878	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:72070878C>T	uc001swq.2	+	3	1183	c.677C>T	c.(676-678)ACC>ATC	p.T226I		NM_031435	NP_113623	Q9H0W7	THAP2_HUMAN	THAP domain containing, apoptosis associated	226						nucleolus	DNA binding|metal ion binding			ovary(1)	1						ACCAAGAGTACCTTCATTTAA	0.328													7	29	---	---	---	---	PASS
THAP2	83591	broad.mit.edu	37	12	72070879	72070879	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:72070879C>T	uc001swq.2	+	3	1184	c.678C>T	c.(676-678)ACC>ACT	p.T226T		NM_031435	NP_113623	Q9H0W7	THAP2_HUMAN	THAP domain containing, apoptosis associated	226						nucleolus	DNA binding|metal ion binding			ovary(1)	1						CCAAGAGTACCTTCATTTAAA	0.328													7	29	---	---	---	---	PASS
TRHDE	29953	broad.mit.edu	37	12	73056884	73056884	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:73056884G>A	uc001sxa.2	+	19	3014	c.2984G>A	c.(2983-2985)CGA>CAA	p.R995Q		NM_013381	NP_037513	Q9UKU6	TRHDE_HUMAN	thyrotropin-releasing hormone degrading enzyme	995	Extracellular (Potential).				cell-cell signaling|proteolysis|signal transduction	integral to plasma membrane	aminopeptidase activity|metallopeptidase activity|zinc ion binding			ovary(2)|skin(1)	3						TCTTTCTCACGAGCTGTGGAA	0.388													15	35	---	---	---	---	PASS
OSBPL8	114882	broad.mit.edu	37	12	76763451	76763451	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:76763451G>A	uc001sye.1	-	20	2686	c.2206C>T	c.(2206-2208)CCA>TCA	p.P736S	OSBPL8_uc001syf.1_Missense_Mutation_p.P694S|OSBPL8_uc001syg.1_Missense_Mutation_p.P694S|OSBPL8_uc001syh.1_Missense_Mutation_p.P711S	NM_020841	NP_065892	Q9BZF1	OSBL8_HUMAN	oxysterol-binding protein-like protein 8 isoform	736					lipid transport		lipid binding			ovary(1)	1						CCTGTGAGTGGATCAAGTTCA	0.353													6	45	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	12	80632759	80632759	+	IGR	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:80632759G>A								PPP1R12A (303524 upstream) : PTPRQ (205367 downstream)																							AGCATTTGAGGTAAATTTGAT	0.368													3	17	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	12	80655764	80655764	+	IGR	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:80655764G>A								PPP1R12A (326529 upstream) : PTPRQ (182362 downstream)																							CATCAGGCATGATAGAAGGTA	0.398													16	64	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	12	80722484	80722484	+	IGR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:80722484C>T								PPP1R12A (393249 upstream) : PTPRQ (115642 downstream)																							AAAATATGATCCTTGATGAGG	0.353													6	31	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	12	80746106	80746106	+	IGR	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:80746106G>A								PPP1R12A (416871 upstream) : PTPRQ (92020 downstream)																							GAAAAGATGTGGATCAATTAT	0.353													11	10	---	---	---	---	PASS
MYF5	4617	broad.mit.edu	37	12	81111227	81111227	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:81111227C>T	uc001szg.2	+	1	520	c.385C>T	c.(385-387)CGC>TGC	p.R129C		NM_005593	NP_005584	P13349	MYF5_HUMAN	myogenic factor 5	129	Helix-loop-helix motif.				muscle cell fate commitment|positive regulation of muscle cell differentiation|skeletal muscle tissue development	nucleoplasm	DNA binding|protein heterodimerization activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity			ovary(1)	1						GAATGCCATCCGCTACATCGA	0.587													41	53	---	---	---	---	PASS
ACSS3	79611	broad.mit.edu	37	12	81528754	81528754	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:81528754G>A	uc001szl.1	+	3	707	c.616G>A	c.(616-618)GAA>AAA	p.E206K	ACSS3_uc001szm.1_Missense_Mutation_p.E205K	NM_024560	NP_078836	Q9H6R3	ACSS3_HUMAN	acyl-CoA synthetase short-chain family member 3	206						mitochondrion	acetate-CoA ligase activity|ATP binding			ovary(1)|lung(1)|central_nervous_system(1)|skin(1)	4						TGCTTCCAAAGAACTAAGTAG	0.383													16	20	---	---	---	---	PASS
PPFIA2	8499	broad.mit.edu	37	12	81741342	81741342	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:81741342C>T	uc001szo.1	-	18	2363	c.2202G>A	c.(2200-2202)AGG>AGA	p.R734R	PPFIA2_uc010sue.1_Intron|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA|PPFIA2_uc010suf.1_RNA|PPFIA2_uc009zsh.2_Intron	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	660										ovary(3)|lung(2)|pancreas(1)	6						GATCCATTTCCCTGGCAGGGC	0.473													11	93	---	---	---	---	PASS
PPFIA2	8499	broad.mit.edu	37	12	81741515	81741515	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:81741515G>A	uc001szo.1	-	18	2190	c.2029C>T	c.(2029-2031)CGT>TGT	p.R677C	PPFIA2_uc010sue.1_Intron|PPFIA2_uc010sug.1_RNA|PPFIA2_uc010suh.1_RNA|PPFIA2_uc010sui.1_RNA|PPFIA2_uc010suj.1_RNA|PPFIA2_uc009zsi.1_RNA|PPFIA2_uc010suf.1_RNA|PPFIA2_uc009zsh.2_RNA	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2	603										ovary(3)|lung(2)|pancreas(1)	6						TCTTCAGCACGCAACTCTGTA	0.398													27	27	---	---	---	---	PASS
ALX1	8092	broad.mit.edu	37	12	85695207	85695207	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:85695207G>A	uc001tae.3	+	4	939	c.935G>A	c.(934-936)CGA>CAA	p.R312Q		NM_006982	NP_008913	Q15699	ALX1_HUMAN	cartilage paired-class homeoprotein 1	312	OAR.				brain development|cartilage condensation|negative regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter		sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(134;0.134)		GCAGTTCTTCGAATGAAAGCC	0.378													30	32	---	---	---	---	PASS
CEP290	80184	broad.mit.edu	37	12	88512511	88512511	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:88512511G>A	uc001tar.2	-	16	1876	c.1532C>T	c.(1531-1533)CCA>CTA	p.P511L	CEP290_uc001tat.2_Missense_Mutation_p.P273L|CEP290_uc009zsl.1_RNA	NM_025114	NP_079390	O15078	CE290_HUMAN	centrosomal protein 290kDa	511	Potential.				cilium assembly|eye photoreceptor cell development|G2/M transition of mitotic cell cycle|hindbrain development|otic vesicle formation|positive regulation of transcription, DNA-dependent|pronephros development|protein transport	cell surface|centrosome|cytosol|nucleus|photoreceptor connecting cilium	protein binding			ovary(5)|breast(1)|pancreas(1)	7						CATTGTCTTTGGTTCAAGGCC	0.313													21	22	---	---	---	---	PASS
C12orf74	338809	broad.mit.edu	37	12	93100563	93100563	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:93100563G>A	uc001tch.1	+	2	386	c.156G>A	c.(154-156)AGG>AGA	p.R52R	C12orf74_uc001tci.2_Silent_p.R52R	NM_001037671	NP_001032760	Q32Q52	CL074_HUMAN	hypothetical protein LOC338809	52											0						CCACTTTGAGGAGATTAAGGA	0.627													19	16	---	---	---	---	PASS
PLEKHG7	440107	broad.mit.edu	37	12	93147976	93147976	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:93147976G>A	uc001tcj.2	+	6	656	c.426G>A	c.(424-426)AGG>AGA	p.R142R		NM_001004330	NP_001004330	Q6ZR37	PKHG7_HUMAN	pleckstrin homology domain containing, family G	142	DH.				regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			ovary(1)	1						TCTGGAAAAGGAGCATGGACT	0.463													21	30	---	---	---	---	PASS
CCDC41	51134	broad.mit.edu	37	12	94806173	94806173	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:94806173G>T	uc001tdd.2	-	3	680	c.94C>A	c.(94-96)CAG>AAG	p.Q32K	CCDC41_uc001tde.2_Missense_Mutation_p.Q32K|CCDC41_uc009zsw.1_RNA|CCDC41_uc001tdf.2_Missense_Mutation_p.Q32K	NM_016122	NP_057206	Q9Y592	CCD41_HUMAN	NY-REN-58 antigen	24											0						AACATTTTCTGGAACTCCGAC	0.378													5	62	---	---	---	---	PASS
C12orf63	374467	broad.mit.edu	37	12	97102582	97102582	+	Splice_Site	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:97102582G>A	uc001tet.1	+	15	2077	c.1999_splice	c.e15+1	p.E667_splice		NM_198520	NP_940922	Q6ZTY8	CL063_HUMAN	hypothetical protein LOC374467											skin(6)|ovary(1)	7						AACTTGGAAGGTAATTGTTTT	0.348													4	24	---	---	---	---	PASS
APAF1	317	broad.mit.edu	37	12	99071191	99071191	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:99071191C>T	uc001tfz.2	+						APAF1_uc001tfy.2_Intron|APAF1_uc001tga.2_Intron|APAF1_uc001tgb.2_Intron|APAF1_uc001tgc.2_Intron|APAF1_uc009zto.2_Intron	NM_181861	NP_863651	O14727	APAF_HUMAN	apoptotic peptidase activating factor 1 isoform						activation of caspase activity by cytochrome c|defense response|induction of apoptosis by intracellular signals|nervous system development	cytosol|Golgi apparatus|nucleus	ATP binding|caspase activator activity|protein binding			ovary(2)|lung(1)	3					Adenosine triphosphate(DB00171)	TTCATTTTTTCCCTGTATTTA	0.348													5	14	---	---	---	---	PASS
ANKS1B	56899	broad.mit.edu	37	12	99446974	99446974	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:99446974C>T	uc001tge.1	-	17	3156	c.2739G>A	c.(2737-2739)ATG>ATA	p.M913I	ANKS1B_uc001tgf.1_Missense_Mutation_p.M489I|ANKS1B_uc001tgk.2_Missense_Mutation_p.M210I|ANKS1B_uc001tgd.1_Missense_Mutation_p.M139I|ANKS1B_uc001tgi.2_Missense_Mutation_p.M139I|ANKS1B_uc009ztr.2_Missense_Mutation_p.M139I|ANKS1B_uc001tgj.2_Missense_Mutation_p.M139I|ANKS1B_uc001tgg.3_Missense_Mutation_p.M82I|ANKS1B_uc010svg.1_Missense_Mutation_p.M108I|ANKS1B_uc009zts.1_Missense_Mutation_p.M139I|ANKS1B_uc001tgm.1_Missense_Mutation_p.M139I	NM_152788	NP_690001	Q7Z6G8	ANS1B_HUMAN	cajalin 2 isoform a	913	SAM 2.					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)		TCAACAGGTCCATCGAAGTGT	0.403													7	8	---	---	---	---	PASS
FAM71C	196472	broad.mit.edu	37	12	100042451	100042451	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:100042451G>A	uc001tgn.2	+	1	921	c.499G>A	c.(499-501)GAA>AAA	p.E167K	ANKS1B_uc001tge.1_Intron|ANKS1B_uc001tgf.1_Intron|ANKS1B_uc009ztt.1_Intron	NM_153364	NP_699195	Q8NEG0	FA71C_HUMAN	hypothetical protein LOC196472	167											0				OV - Ovarian serous cystadenocarcinoma(2;0.00733)|Epithelial(2;0.0385)|all cancers(2;0.19)		TGTTCACTGGGAAAACCTTGT	0.488													24	12	---	---	---	---	PASS
ACTR6	64431	broad.mit.edu	37	12	100603946	100603946	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:100603946C>T	uc001thb.1	+	5	531	c.475C>T	c.(475-477)CCT>TCT	p.P159S	ACTR6_uc001thc.1_Missense_Mutation_p.P51S|ACTR6_uc001thd.1_Missense_Mutation_p.P159S|ACTR6_uc009ztu.1_Intron|ACTR6_uc001the.1_Missense_Mutation_p.P77S|ACTR6_uc001thf.1_Missense_Mutation_p.P77S|uc001thg.1_Intron	NM_022496	NP_071941	Q9GZN1	ARP6_HUMAN	ARP6 actin-related protein 6 homolog	159						cytoplasm|cytoskeleton				ovary(1)	1						ACATATAGTTCCTTATTGTAG	0.323													14	48	---	---	---	---	PASS
SLC17A8	246213	broad.mit.edu	37	12	100774480	100774480	+	Nonsense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:100774480A>T	uc010svi.1	+	2	416	c.103A>T	c.(103-105)AAA>TAA	p.K35*	SLC17A8_uc009ztx.2_Nonsense_Mutation_p.K35*	NM_139319	NP_647480	Q8NDX2	VGLU3_HUMAN	solute carrier family 17 (sodium-dependent	35	Cytoplasmic (Potential).				neurotransmitter transport|sensory perception of sound|sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)	3						CCCATGTAGAAAAATCGATGG	0.433													10	81	---	---	---	---	PASS
SLC17A8	246213	broad.mit.edu	37	12	100796535	100796535	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:100796535G>A	uc010svi.1	+						SLC17A8_uc009ztx.2_Intron	NM_139319	NP_647480	Q8NDX2	VGLU3_HUMAN	solute carrier family 17 (sodium-dependent						neurotransmitter transport|sensory perception of sound|sodium ion transport	cell junction|integral to membrane|synaptic vesicle membrane|synaptosome	L-glutamate transmembrane transporter activity|symporter activity			ovary(3)	3						TAAACACACAGATGCTCCAAA	0.308													6	20	---	---	---	---	PASS
GAS2L3	283431	broad.mit.edu	37	12	101018440	101018440	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:101018440C>T	uc001thu.2	+	10	2083	c.1857C>T	c.(1855-1857)CCC>CCT	p.P619P	GAS2L3_uc009zty.2_Silent_p.P619P|GAS2L3_uc001thv.2_Silent_p.P515P	NM_174942	NP_777602	Q86XJ1	GA2L3_HUMAN	growth arrest-specific 2 like 3	619					cell cycle arrest					skin(1)	1						TGAGCCTACCCCAGTCTTCTA	0.517													6	35	---	---	---	---	PASS
SLC5A8	160728	broad.mit.edu	37	12	101603489	101603489	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:101603489C>T	uc001thz.3	-	1	528	c.138G>A	c.(136-138)CTG>CTA	p.L46L		NM_145913	NP_666018	Q8N695	SC5A8_HUMAN	solute carrier family 5 (iodide transporter),	46	Cytoplasmic (Potential).				apoptosis|sodium ion transport	apical plasma membrane|integral to membrane	monocarboxylic acid transmembrane transporter activity|passive transmembrane transporter activity|symporter activity				0						GGCCGCCCATCAGGAAGTCCT	0.662													4	20	---	---	---	---	PASS
MYBPC1	4604	broad.mit.edu	37	12	102038442	102038442	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:102038442C>T	uc001tii.2	+	10	860	c.758C>T	c.(757-759)GCT>GTT	p.A253V	MYBPC1_uc001tif.1_Missense_Mutation_p.A266V|MYBPC1_uc001tig.2_Missense_Mutation_p.A278V|MYBPC1_uc010svq.1_Missense_Mutation_p.A240V|MYBPC1_uc001tih.2_Missense_Mutation_p.A278V|MYBPC1_uc001tij.2_Missense_Mutation_p.A253V|MYBPC1_uc010svr.1_Missense_Mutation_p.A253V|MYBPC1_uc010svs.1_Missense_Mutation_p.A253V|MYBPC1_uc010svt.1_Missense_Mutation_p.A241V|MYBPC1_uc010svu.1_Missense_Mutation_p.A234V|MYBPC1_uc001tik.2_Missense_Mutation_p.A227V	NM_206820	NP_996556	Q00872	MYPC1_HUMAN	myosin binding protein C, slow type isoform 3	253	Ig-like C2-type 2.				cell adhesion|muscle filament sliding	cytosol|myofibril|myosin filament	actin binding|structural constituent of muscle|titin binding			ovary(2)|liver(1)|skin(1)	4						ATTCTATCAGCTTTTGCAAAA	0.348													4	33	---	---	---	---	PASS
IGF1	3479	broad.mit.edu	37	12	102869442	102869442	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:102869442C>T	uc001tjp.3	-	2	418	c.199G>A	c.(199-201)GGA>AGA	p.G67R	IGF1_uc001tjn.2_Missense_Mutation_p.G51R|IGF1_uc001tjm.2_Missense_Mutation_p.G67R|IGF1_uc001tjo.2_Missense_Mutation_p.G67R	NM_001111285	NP_001104755	P05019	IGF1_HUMAN	insulin-like growth factor 1 isoform 3	67	B.				anti-apoptosis|bone mineralization involved in bone maturation|cellular component movement|DNA replication|glycolate metabolic process|muscle hypertrophy|myoblast differentiation|myoblast proliferation|myotube cell development|negative regulation of smooth muscle cell apoptosis|phosphatidylinositol-mediated signaling|platelet activation|platelet degranulation|positive regulation of activated T cell proliferation|positive regulation of DNA replication|positive regulation of epithelial cell proliferation|positive regulation of fibroblast proliferation|positive regulation of glucose import|positive regulation of glycogen biosynthetic process|positive regulation of glycolysis|positive regulation of insulin-like growth factor receptor signaling pathway|positive regulation of mitosis|positive regulation of osteoblast differentiation|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of Ras protein signal transduction|positive regulation of smooth muscle cell migration|positive regulation of smooth muscle cell proliferation|positive regulation of transcription from RNA polymerase II promoter|positive regulation of tyrosine phosphorylation of Stat5 protein|Ras protein signal transduction|regulation of multicellular organism growth|satellite cell maintenance involved in skeletal muscle regeneration	platelet alpha granule lumen	growth factor activity|hormone activity|insulin receptor binding|insulin-like growth factor receptor binding|integrin binding			central_nervous_system(1)|pancreas(1)	2						CCCCTGTCTCCACACACGAAC	0.562													14	45	---	---	---	---	PASS
STAB2	55576	broad.mit.edu	37	12	104056617	104056617	+	Intron	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:104056617T>A	uc001tjw.2	+							NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor						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						TCATTTTTTCTTTCCAGGGAC	0.428													6	42	---	---	---	---	PASS
STAB2	55576	broad.mit.edu	37	12	104063394	104063394	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:104063394G>A	uc001tjw.2	+	21	2434	c.2248G>A	c.(2248-2250)GGA>AGA	p.G750R		NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor	750	Extracellular (Potential).|EGF-like 6.				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						TCCATGCTCAGGAAATGGACA	0.413													19	28	---	---	---	---	PASS
STAB2	55576	broad.mit.edu	37	12	104067675	104067675	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:104067675C>T	uc001tjw.2	+							NM_017564	NP_060034	Q8WWQ8	STAB2_HUMAN	stabilin 2 precursor						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						CCCTCCTCCTCCTCTTTCAGA	0.602													4	27	---	---	---	---	PASS
WSCD2	9671	broad.mit.edu	37	12	108589759	108589759	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:108589759G>A	uc001tms.2	+	2	894	c.150G>A	c.(148-150)GCG>GCA	p.A50A	WSCD2_uc001tmt.2_Silent_p.A50A	NM_014653	NP_055468	Q2TBF2	WSCD2_HUMAN	WSC domain containing 2	50						integral to membrane				ovary(1)|large_intestine(1)|breast(1)	3						GGAACCAGGCGAACCCCGCTG	0.607													17	76	---	---	---	---	PASS
WSCD2	9671	broad.mit.edu	37	12	108620950	108620950	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:108620950G>A	uc001tms.2	+						WSCD2_uc001tmt.2_Intron|WSCD2_uc001tmu.2_Intron	NM_014653	NP_055468	Q2TBF2	WSCD2_HUMAN	WSC domain containing 2							integral to membrane				ovary(1)|large_intestine(1)|breast(1)	3						AGGTGAGCTAGGCCCTTCCCC	0.577													9	8	---	---	---	---	PASS
TMEM119	338773	broad.mit.edu	37	12	108985911	108985911	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:108985911G>A	uc001tng.2	-	2	412	c.249C>T	c.(247-249)TTC>TTT	p.F83F	TMEM119_uc001tnf.2_RNA	NM_181724	NP_859075	Q4V9L6	TM119_HUMAN	transmembrane protein 119 precursor	83	Extracellular (Potential).					integral to membrane				ovary(1)	1						TCCCATCCAGGAAGTTGGTGG	0.652													8	25	---	---	---	---	PASS
SVOP	55530	broad.mit.edu	37	12	109306389	109306389	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:109306389C>T	uc010sxh.1	-	15	1741	c.1569G>A	c.(1567-1569)CGG>CGA	p.R523R		NM_018711	NP_061181	Q8N4V2	SVOP_HUMAN	SV2 related protein	523	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	ion transmembrane transporter activity				0						GGCCCCACTCCCGGTGGCTGG	0.617													22	72	---	---	---	---	PASS
ACACB	32	broad.mit.edu	37	12	109677647	109677647	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:109677647G>A	uc001tob.2	+	35	4794	c.4675G>A	c.(4675-4677)GAA>AAA	p.E1559K	ACACB_uc001toc.2_Missense_Mutation_p.E1559K|ACACB_uc010sxl.1_RNA|ACACB_uc001tod.2_RNA|ACACB_uc010sxm.1_Missense_Mutation_p.E225K	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	1559					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)	AGCCTCCTTCGAATACCTGCA	0.622													10	7	---	---	---	---	PASS
ACACB	32	broad.mit.edu	37	12	109696794	109696794	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:109696794G>A	uc001tob.2	+	47	6496	c.6377G>A	c.(6376-6378)GGA>GAA	p.G2126E	ACACB_uc001toc.2_Missense_Mutation_p.G2126E|ACACB_uc010sxl.1_RNA|ACACB_uc001tod.2_RNA|ACACB_uc010sxm.1_Missense_Mutation_p.G792E	NM_001093	NP_001084	O00763	ACACB_HUMAN	acetyl-Coenzyme A carboxylase beta	2126	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)	CAGCAGGCAGGACAGGTGTGG	0.582											OREG0007682	type=TRANSCRIPTION FACTOR BINDING SITE|Gene=ACACB|TFbs=REST|Dataset=NRSF/REST ChIPSeq sites|EvidenceSubtype=Chromatin immunoprecipitation with tag sequencing (ChIP-TS)	27	131	---	---	---	---	PASS
FOXN4	121643	broad.mit.edu	37	12	109724543	109724543	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:109724543C>T	uc001toe.3	-	7	708	c.603G>A	c.(601-603)CTG>CTA	p.L201L	FOXN4_uc009zvg.2_5'UTR|FOXN4_uc001tof.3_Silent_p.L21L	NM_213596	NP_998761	Q96NZ1	FOXN4_HUMAN	forkhead box N4	201	Fork-head.				axon extension|embryo development|organ development|pattern specification process|regulation of heart contraction|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			ovary(1)|lung(1)	2						CCATGGCGATCAGACAGCTGG	0.478													8	10	---	---	---	---	PASS
MVK	4598	broad.mit.edu	37	12	110032827	110032827	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:110032827C>T	uc001toy.3	+						MVK_uc009zvk.2_Intron|MVK_uc010sxr.1_Intron|MVK_uc001toz.3_Intron|MVK_uc001tpc.3_Intron	NM_001114185	NP_001107657	Q03426	KIME_HUMAN	mevalonate kinase						cholesterol biosynthetic process|isoprenoid biosynthetic process	cytosol|peroxisome	ATP binding|identical protein binding|mevalonate kinase activity				0						GAACCTTCTCCCCTAGGAGCT	0.617													6	28	---	---	---	---	PASS
CUX2	23316	broad.mit.edu	37	12	111744784	111744784	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:111744784G>A	uc001tsa.1	+	11	1071	c.918G>A	c.(916-918)AAG>AAA	p.K306K		NM_015267	NP_056082	O14529	CUX2_HUMAN	cut-like 2	306	Potential.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|breast(1)	6						TGGCCTCCAAGGACAGGGAGA	0.642													15	21	---	---	---	---	PASS
CUX2	23316	broad.mit.edu	37	12	111779756	111779756	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:111779756C>T	uc001tsa.1	+	21	3711	c.3558C>T	c.(3556-3558)GCC>GCT	p.A1186A		NM_015267	NP_056082	O14529	CUX2_HUMAN	cut-like 2	1186	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|breast(1)	6						TGCGGAAGGCCTATCAGCTGG	0.622													15	24	---	---	---	---	PASS
CUX2	23316	broad.mit.edu	37	12	111785937	111785937	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:111785937C>T	uc001tsa.1	+	22	4422	c.4269C>T	c.(4267-4269)TCC>TCT	p.S1423S		NM_015267	NP_056082	O14529	CUX2_HUMAN	cut-like 2	1423	Pro-rich.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)|breast(1)	6						TCTCCCCATCCCCACCTGGCG	0.657													7	29	---	---	---	---	PASS
ACAD10	80724	broad.mit.edu	37	12	112147356	112147356	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:112147356C>T	uc001tsq.2	+	5	758	c.558C>T	c.(556-558)ATC>ATT	p.I186I	ACAD10_uc009zvw.2_Silent_p.I186I|ACAD10_uc001tso.3_Silent_p.I186I|ACAD10_uc001tsp.2_Silent_p.I186I|ACAD10_uc009zvx.2_Silent_p.I186I|ACAD10_uc001tsr.2_5'Flank	NM_025247	NP_079523	Q6JQN1	ACD10_HUMAN	acyl-Coenzyme A dehydrogenase family, member 10	186							acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|hydrolase activity|transferase activity, transferring phosphorus-containing groups			ovary(2)	2						TGGAAGGGATCTGTAAGCCAG	0.498													7	18	---	---	---	---	PASS
ACAD10	80724	broad.mit.edu	37	12	112184986	112184986	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:112184986C>T	uc001tsq.2	+	15	2590	c.2390C>T	c.(2389-2391)CCC>CTC	p.P797L	ACAD10_uc001tsp.2_Missense_Mutation_p.P797L|ACAD10_uc009zvx.2_Missense_Mutation_p.P828L|ACAD10_uc001tss.1_RNA	NM_025247	NP_079523	Q6JQN1	ACD10_HUMAN	acyl-Coenzyme A dehydrogenase family, member 10	797	FAD (By similarity).						acyl-CoA dehydrogenase activity|flavin adenine dinucleotide binding|hydrolase activity|transferase activity, transferring phosphorus-containing groups			ovary(2)	2						ATGACCGAGCCCCAGGTACGT	0.622													13	12	---	---	---	---	PASS
NAA25	80018	broad.mit.edu	37	12	112509690	112509690	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:112509690G>A	uc001ttm.2	-						NAA25_uc001ttn.3_Intron|NAA25_uc009zvz.1_Intron|NAA25_uc009zwa.1_Intron	NM_024953	NP_079229	Q14CX7	NAA25_HUMAN	mitochondrial distribution and morphology 20							cytoplasm	protein binding			ovary(1)|breast(1)|pancreas(1)	3						AGATATCATGGTTTCTTACCC	0.433													6	6	---	---	---	---	PASS
OAS1	4938	broad.mit.edu	37	12	113355404	113355404	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:113355404C>T	uc001tud.2	+	5	1043	c.937C>T	c.(937-939)CCA>TCA	p.P313S	OAS1_uc001tub.2_Missense_Mutation_p.P313S|OAS1_uc001tuc.2_Missense_Mutation_p.P313S|OAS1_uc009zwf.2_Missense_Mutation_p.P312S	NM_016816	NP_058132	P00973	OAS1_HUMAN	2',5'-oligoadenylate synthetase 1 isoform 1	313					interferon-gamma-mediated signaling pathway|nucleobase, nucleoside, nucleotide and nucleic acid metabolic process|type I interferon-mediated signaling pathway	endoplasmic reticulum|microsome|mitochondrion|nucleus	ATP binding|nucleotidyltransferase activity|RNA binding			ovary(2)	2						TGGTGGAGACCCAAAGGGTTG	0.577													20	73	---	---	---	---	PASS
RASAL1	8437	broad.mit.edu	37	12	113543661	113543661	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:113543661G>A	uc001tum.1	-	17	1978	c.1685C>T	c.(1684-1686)CCG>CTG	p.P562L	RASAL1_uc010syp.1_Missense_Mutation_p.P563L|RASAL1_uc001tul.2_Missense_Mutation_p.P562L|RASAL1_uc001tun.1_Missense_Mutation_p.P564L|RASAL1_uc010syq.1_Missense_Mutation_p.P563L|RASAL1_uc001tuo.3_Missense_Mutation_p.P563L	NM_004658	NP_004649	O95294	RASL1_HUMAN	RAS protein activator like 1	562					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						GGCCGAGGGCGGGAACAGGGC	0.622													13	17	---	---	---	---	PASS
RASAL1	8437	broad.mit.edu	37	12	113557156	113557156	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:113557156C>T	uc001tum.1	-						RASAL1_uc010syp.1_Intron|RASAL1_uc001tul.2_Intron|RASAL1_uc001tun.1_Intron|RASAL1_uc010syq.1_Intron|RASAL1_uc001tuo.3_Intron|RASAL1_uc010syr.1_Intron	NM_004658	NP_004649	O95294	RASL1_HUMAN	RAS protein activator like 1						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						GCTTCATTCCCCACCACTCAC	0.587													5	12	---	---	---	---	PASS
TBX3	6926	broad.mit.edu	37	12	115118751	115118751	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:115118751C>T	uc001tvt.1	-	2	1554	c.590G>A	c.(589-591)TGG>TAG	p.W197*	TBX3_uc001tvu.1_Nonsense_Mutation_p.W197*|TBX3_uc010syw.1_Nonsense_Mutation_p.W197*	NM_016569	NP_057653	O15119	TBX3_HUMAN	T-box 3 protein isoform 2	197	T-box; first part.				anterior/posterior axis specification, embryo|anti-apoptosis|cell aging|embryonic arm morphogenesis|embryonic digit morphogenesis|female genitalia development|follicle-stimulating hormone secretion|luteinizing hormone secretion|male genitalia development|mesoderm morphogenesis|negative regulation of myoblast differentiation|negative regulation of transcription, DNA-dependent|positive regulation of cell cycle|positive regulation of cell proliferation|regulation of transcription from RNA polymerase II promoter|skeletal system development	nucleus	sequence-specific DNA binding			ovary(2)|skin(1)	3	Medulloblastoma(191;0.163)|all_neural(191;0.178)			BRCA - Breast invasive adenocarcinoma(302;0.0574)		TTTGGACATCCACTGTTCCCC	0.453													31	38	---	---	---	---	PASS
FBXW8	26259	broad.mit.edu	37	12	117448145	117448145	+	Silent	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:117448145G>T	uc001twg.1	+	8	1339	c.1257G>T	c.(1255-1257)CTG>CTT	p.L419L	FBXW8_uc001twf.1_Silent_p.L353L|FBXW8_uc009zwp.1_RNA	NM_153348	NP_699179	Q8N3Y1	FBXW8_HUMAN	F-box and WD repeat domain containing 8 isoform	419							protein binding			ovary(2)|pancreas(1)	3	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0353)		TGTATAGCCTGGAAGCAGGAC	0.537													25	30	---	---	---	---	PASS
FBXW8	26259	broad.mit.edu	37	12	117448146	117448146	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:117448146G>A	uc001twg.1	+	8	1340	c.1258G>A	c.(1258-1260)GAA>AAA	p.E420K	FBXW8_uc001twf.1_Missense_Mutation_p.E354K|FBXW8_uc009zwp.1_RNA	NM_153348	NP_699179	Q8N3Y1	FBXW8_HUMAN	F-box and WD repeat domain containing 8 isoform	420							protein binding			ovary(2)|pancreas(1)	3	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0353)		GTATAGCCTGGAAGCAGGACG	0.532													24	32	---	---	---	---	PASS
FBXW8	26259	broad.mit.edu	37	12	117465849	117465849	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:117465849C>T	uc001twg.1	+	11	1751	c.1669C>T	c.(1669-1671)CGC>TGC	p.R557C	FBXW8_uc001twf.1_Missense_Mutation_p.R491C|FBXW8_uc009zwp.1_RNA	NM_153348	NP_699179	Q8N3Y1	FBXW8_HUMAN	F-box and WD repeat domain containing 8 isoform	557							protein binding			ovary(2)|pancreas(1)	3	all_neural(191;0.117)|Medulloblastoma(191;0.163)			BRCA - Breast invasive adenocarcinoma(302;0.0353)		GGGGCTGATCCGCGCCTATGA	0.622													8	19	---	---	---	---	PASS
SRRM4	84530	broad.mit.edu	37	12	119419693	119419693	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:119419693G>A	uc001txa.1	+	1	298	c.6G>A	c.(4-6)GCG>GCA	p.A2A		NM_194286	NP_919262	A7MD48	SRRM4_HUMAN	KIAA1853 protein	2					cell differentiation|mRNA processing|nervous system development|regulation of RNA splicing|RNA splicing	nucleus	mRNA binding			ovary(2)	2						TGGCGATGGCGAGCGTTCAGC	0.627													7	10	---	---	---	---	PASS
CIT	11113	broad.mit.edu	37	12	120288021	120288021	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:120288021G>A	uc001txi.1	-	5	526	c.473C>T	c.(472-474)CCC>CTC	p.P158L	CIT_uc001txj.1_Missense_Mutation_p.P158L	NM_007174	NP_009105	O14578	CTRO_HUMAN	citron	158	Protein kinase.				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)		CTGTAATTGGGGGATCCACGG	0.413													107	111	---	---	---	---	PASS
GCN1L1	10985	broad.mit.edu	37	12	120597799	120597799	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:120597799C>T	uc001txo.2	-	24	2592	c.2579G>A	c.(2578-2580)GGA>GAA	p.G860E		NM_006836	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis	860					regulation of translation	ribosome	protein binding|translation factor activity, nucleic acid binding			ovary(4)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					GTCCAGCAGTCCAAGCGCCGC	0.602													8	29	---	---	---	---	PASS
GCN1L1	10985	broad.mit.edu	37	12	120616465	120616465	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:120616465G>A	uc001txo.2	-	7	636	c.623C>T	c.(622-624)ACG>ATG	p.T208M		NM_006836	NP_006827	Q92616	GCN1L_HUMAN	GCN1 general control of amino-acid synthesis	208					regulation of translation	ribosome	protein binding|translation factor activity, nucleic acid binding			ovary(4)	4	all_neural(191;0.0804)|Medulloblastoma(191;0.0922)					CTTGTGACTCGTGCAGAACTG	0.572													24	26	---	---	---	---	PASS
CABP1	9478	broad.mit.edu	37	12	121098004	121098004	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:121098004C>T	uc001tyu.2	+	3	758	c.691C>T	c.(691-693)CGA>TGA	p.R231*	CABP1_uc001tyv.2_Nonsense_Mutation_p.R88*|CABP1_uc001tyw.2_Nonsense_Mutation_p.R28*|CABP1_uc001tyx.2_Nonsense_Mutation_p.R73*	NM_001033677	NP_001028849	Q9NZU7	CABP1_HUMAN	calcium binding protein 1 isoform 3	231	EF-hand 1.					cell cortex|cell junction|Golgi apparatus|perinuclear region of cytoplasm|postsynaptic density|postsynaptic membrane	calcium ion binding|calcium-dependent protein binding|enzyme inhibitor activity|protein binding			central_nervous_system(1)	1	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					CCCAGAGCTCCGAGAGGCCTT	0.592													7	51	---	---	---	---	PASS
MLEC	9761	broad.mit.edu	37	12	121134306	121134306	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:121134306C>T	uc001tyy.1	+	5	988	c.837C>T	c.(835-837)TTC>TTT	p.F279F		NM_014730	NP_055545	Q14165	MLEC_HUMAN	malectin precursor	279	Helical; (Potential).				post-translational protein modification|protein folding|protein N-linked glycosylation via asparagine	endoplasmic reticulum membrane|integral to membrane	carbohydrate binding			ovary(1)	1						TGGTGGCCTTCGGAGTCTTCA	0.542													83	84	---	---	---	---	PASS
UNC119B	84747	broad.mit.edu	37	12	121154450	121154450	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:121154450G>A	uc001tyz.2	+	3	825	c.378G>A	c.(376-378)GAG>GAA	p.E126E		NM_001080533	NP_001074002	A6NIH7	U119B_HUMAN	unc-119 homolog B	126										haematopoietic_and_lymphoid_tissue(1)	1	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					AGGATGAGGAGGAGGGAGGTG	0.542													47	81	---	---	---	---	PASS
UNC119B	84747	broad.mit.edu	37	12	121154451	121154451	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:121154451G>A	uc001tyz.2	+	3	826	c.379G>A	c.(379-381)GAG>AAG	p.E127K		NM_001080533	NP_001074002	A6NIH7	U119B_HUMAN	unc-119 homolog B	127										haematopoietic_and_lymphoid_tissue(1)	1	all_neural(191;0.0684)|Medulloblastoma(191;0.0922)					GGATGAGGAGGAGGGAGGTGG	0.547													48	81	---	---	---	---	PASS
KDM2B	84678	broad.mit.edu	37	12	121947413	121947413	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:121947413G>A	uc001uat.2	-	11	1708	c.1604C>T	c.(1603-1605)CCC>CTC	p.P535L	KDM2B_uc001uar.2_Missense_Mutation_p.P126L|KDM2B_uc001uas.2_Missense_Mutation_p.P504L|KDM2B_uc001uau.2_Missense_Mutation_p.P418L|KDM2B_uc001uav.3_Missense_Mutation_p.P445L	NM_032590	NP_115979	Q8NHM5	KDM2B_HUMAN	F-box and leucine-rich repeat protein 10 isoform	535					embryonic camera-type eye morphogenesis|fourth ventricle development|histone H2A monoubiquitination|initiation of neural tube closure|lateral ventricle development|midbrain development|midbrain-hindbrain boundary morphogenesis|negative regulation of neural precursor cell proliferation|negative regulation of neuron apoptosis|negative regulation of transcription from RNA polymerase II promoter|spermatogenesis|third ventricle development|transcription, DNA-dependent	nucleolus	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|rRNA binding|zinc ion binding			ovary(1)|skin(1)	2						GATGCCCTCGGGGACACACTT	0.627													7	30	---	---	---	---	PASS
KDM2B	84678	broad.mit.edu	37	12	121986815	121986815	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:121986815G>A	uc001uat.2	-	6	754	c.650C>T	c.(649-651)GCC>GTC	p.A217V	KDM2B_uc001uas.2_Missense_Mutation_p.A186V|KDM2B_uc001uau.2_Missense_Mutation_p.A100V|KDM2B_uc001uav.3_Missense_Mutation_p.A217V	NM_032590	NP_115979	Q8NHM5	KDM2B_HUMAN	F-box and leucine-rich repeat protein 10 isoform	217	JmjC.				embryonic camera-type eye morphogenesis|fourth ventricle development|histone H2A monoubiquitination|initiation of neural tube closure|lateral ventricle development|midbrain development|midbrain-hindbrain boundary morphogenesis|negative regulation of neural precursor cell proliferation|negative regulation of neuron apoptosis|negative regulation of transcription from RNA polymerase II promoter|spermatogenesis|third ventricle development|transcription, DNA-dependent	nucleolus	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|rRNA binding|zinc ion binding			ovary(1)|skin(1)	2						CTCTGCAATGGCGTTCGTGGC	0.577													20	29	---	---	---	---	PASS
MLXIP	22877	broad.mit.edu	37	12	122619802	122619802	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:122619802C>T	uc001ubq.2	+	10	1764	c.1764C>T	c.(1762-1764)ATC>ATT	p.I588I	MLXIP_uc001ubt.2_Silent_p.I195I	NM_014938	NP_055753	Q9HAP2	MLXIP_HUMAN	MLX interacting protein	588					regulation of transcription, DNA-dependent|transcription, DNA-dependent	mitochondrial outer membrane|nucleus	DNA binding			ovary(2)	2	all_neural(191;0.0837)|Medulloblastoma(191;0.163)	Lung NSC(355;0.0659)		OV - Ovarian serous cystadenocarcinoma(86;0.000599)|Epithelial(86;0.00102)|BRCA - Breast invasive adenocarcinoma(302;0.233)		AAGCGGTGATCATGACGTCAG	0.627													4	20	---	---	---	---	PASS
LRRC43	254050	broad.mit.edu	37	12	122685097	122685097	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:122685097G>A	uc009zxm.2	+	9	1535	c.1510G>A	c.(1510-1512)GTG>ATG	p.V504M	LRRC43_uc001ubw.3_Missense_Mutation_p.V319M|LRRC43_uc009zxn.2_Missense_Mutation_p.V265M	NM_001098519	NP_001091989	Q8N309	LRC43_HUMAN	leucine rich repeat containing 43 isoform 1	504											0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000312)|Epithelial(86;0.000539)|BRCA - Breast invasive adenocarcinoma(302;0.225)		CTGGCCTGTGGTGCTACCTGC	0.413													14	72	---	---	---	---	PASS
LRRC43	254050	broad.mit.edu	37	12	122685424	122685424	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:122685424C>T	uc009zxm.2	+	10	1777	c.1752C>T	c.(1750-1752)ACC>ACT	p.T584T	LRRC43_uc001ubw.3_Silent_p.T399T|LRRC43_uc009zxn.2_Silent_p.T345T|B3GNT4_uc001ubx.2_5'Flank|B3GNT4_uc001uby.2_5'Flank	NM_001098519	NP_001091989	Q8N309	LRC43_HUMAN	leucine rich repeat containing 43 isoform 1	584											0	all_neural(191;0.0837)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000312)|Epithelial(86;0.000539)|BRCA - Breast invasive adenocarcinoma(302;0.225)		TGGTGTCCACCGTGTGCAACT	0.692													7	11	---	---	---	---	PASS
VPS33A	65082	broad.mit.edu	37	12	122748207	122748207	+	Missense_Mutation	SNP	G	A	A	rs150472752		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:122748207G>A	uc001ucd.2	-	3	321	c.208C>T	c.(208-210)CGT>TGT	p.R70C	VPS33A_uc001ucc.2_RNA|VPS33A_uc001uce.2_Missense_Mutation_p.R70C	NM_022916	NP_075067	Q96AX1	VP33A_HUMAN	vacuolar protein sorting 33A	70					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)		GCCGGCAAACGATTTCCTTTA	0.373													13	23	---	---	---	---	PASS
MPHOSPH9	10198	broad.mit.edu	37	12	123641363	123641363	+	Silent	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:123641363T>C	uc001uel.2	-	20	3194	c.3087A>G	c.(3085-3087)GCA>GCG	p.A1029A	MPHOSPH9_uc010tal.1_Silent_p.A483A|MPHOSPH9_uc010tam.1_RNA|MPHOSPH9_uc001uem.2_Silent_p.A483A	NM_022782	NP_073619	Q99550	MPP9_HUMAN	M-phase phosphoprotein 9	1029					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)		CTCAAAGATTTGCAGAGGTGC	0.363													6	7	---	---	---	---	PASS
SBNO1	55206	broad.mit.edu	37	12	123804440	123804440	+	Intron	SNP	A	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:123804440A>C	uc010tap.1	-						SBNO1_uc010tao.1_Intron|SBNO1_uc010taq.1_Intron	NM_018183	NP_060653	A3KN83	SBNO1_HUMAN	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)		ATCTCAGTAAAACATACCTTA	0.333													19	22	---	---	---	---	PASS
DDX55	57696	broad.mit.edu	37	12	124090657	124090657	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:124090657C>T	uc001ufi.2	+	3	221	c.197C>T	c.(196-198)CCC>CTC	p.P66L	DDX55_uc001ufh.2_5'UTR|DDX55_uc001ufj.1_5'UTR|DDX55_uc001ufk.2_5'Flank	NM_020936	NP_065987	Q8NHQ9	DDX55_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 55	66	Helicase ATP-binding.						ATP binding|ATP-dependent helicase activity|RNA binding	p.P66R(1)		ovary(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000142)|Epithelial(86;0.000637)|all cancers(50;0.00772)		TTTGTCATCCCCATCCTGGAA	0.428													4	35	---	---	---	---	PASS
GTF2H3	2967	broad.mit.edu	37	12	124144701	124144701	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:124144701C>T	uc001ufo.1	+						GTF2H3_uc010tau.1_Intron	NM_001516	NP_001507	Q13889	TF2H3_HUMAN	general transcription factor IIH, polypeptide 3,						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)		GTTTTCCTCTCTGTAATTTCA	0.388								NER					11	40	---	---	---	---	PASS
ATP6V0A2	23545	broad.mit.edu	37	12	124212439	124212439	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:124212439C>T	uc001ufr.2	+	6	879	c.631C>T	c.(631-633)CTT>TTT	p.L211F	ATP6V0A2_uc001ufq.1_Missense_Mutation_p.L211F	NM_012463	NP_036595	Q9Y487	VPP2_HUMAN	ATPase, H+ transporting, lysosomal V0 subunit	211	Cytoplasmic (Potential).				ATP hydrolysis coupled proton transport|cellular iron ion homeostasis|immune response|insulin receptor signaling pathway|transferrin transport	endosome membrane|integral to membrane|plasma membrane|proton-transporting two-sector ATPase complex, proton-transporting domain	hydrogen ion transmembrane transporter activity|protein binding			ovary(2)	2	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000224)|Epithelial(86;0.000625)|all cancers(50;0.00775)		GGATGAATCCCTTGAAGACCC	0.403													6	21	---	---	---	---	PASS
DNAH10	196385	broad.mit.edu	37	12	124325914	124325914	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:124325914G>A	uc001uft.3	+	29	4853	c.4828G>A	c.(4828-4830)GGA>AGA	p.G1610R		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	1610	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)		CGGCGATAGTGGAGAAAAACT	0.522													81	105	---	---	---	---	PASS
DNAH10	196385	broad.mit.edu	37	12	124341675	124341675	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:124341675C>T	uc001uft.3	+	36	6182	c.6157C>T	c.(6157-6159)CTT>TTT	p.L2053F		NM_207437	NP_997320	Q8IVF4	DYH10_HUMAN	dynein, axonemal, heavy chain 10	2053					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)		TCCTCTTTTCCTTGGTTTGAT	0.512													7	55	---	---	---	---	PASS
ZNF664	144348	broad.mit.edu	37	12	124497275	124497275	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:124497275G>A	uc001ufz.2	+	6	2414	c.584G>A	c.(583-585)GGA>GAA	p.G195E	ZNF664_uc001uga.2_Missense_Mutation_p.G195E|ZNF664_uc001ugb.2_Missense_Mutation_p.G195E	NM_152437	NP_689650	Q8N3J9	ZN664_HUMAN	zinc finger protein 664	195					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			Epithelial(86;0.000239)|OV - Ovarian serous cystadenocarcinoma(86;0.000247)|all cancers(50;0.00155)|BRCA - Breast invasive adenocarcinoma(302;0.249)		GTCCACACTGGAGAGAAACCC	0.498													47	53	---	---	---	---	PASS
ZNF664	144348	broad.mit.edu	37	12	124497277	124497277	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:124497277G>A	uc001ufz.2	+	6	2416	c.586G>A	c.(586-588)GAG>AAG	p.E196K	ZNF664_uc001uga.2_Missense_Mutation_p.E196K|ZNF664_uc001ugb.2_Missense_Mutation_p.E196K	NM_152437	NP_689650	Q8N3J9	ZN664_HUMAN	zinc finger protein 664	196					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_neural(191;0.101)|Medulloblastoma(191;0.163)			Epithelial(86;0.000239)|OV - Ovarian serous cystadenocarcinoma(86;0.000247)|all cancers(50;0.00155)|BRCA - Breast invasive adenocarcinoma(302;0.249)		CCACACTGGAGAGAAACCCTA	0.498													48	52	---	---	---	---	PASS
FAM101A	144347	broad.mit.edu	37	12	124798882	124798882	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:124798882C>T	uc001ugd.1	+	3	462	c.219C>T	c.(217-219)ACC>ACT	p.T73T	FAM101A_uc001uge.1_Silent_p.T73T	NM_181709	NP_859060	Q6ZTI6	F101A_HUMAN	hypothetical protein LOC144347	154											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)		GCCAGCTGACCCTGGAGCCAC	0.657													5	32	---	---	---	---	PASS
SCARB1	949	broad.mit.edu	37	12	125292364	125292364	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:125292364C>T	uc001ugo.3	-	7	1205	c.952G>A	c.(952-954)GAA>AAA	p.E318K	SCARB1_uc001ugn.3_Missense_Mutation_p.E318K|SCARB1_uc001ugm.3_Missense_Mutation_p.E318K|SCARB1_uc010tbd.1_Missense_Mutation_p.E318K|SCARB1_uc010tbe.1_Missense_Mutation_p.E277K|SCARB1_uc001ugp.3_Missense_Mutation_p.E318K	NM_005505	NP_005496	Q8WTV0	SCRB1_HUMAN	scavenger receptor class B, member 1 isoform 1	318	Extracellular (Potential).				adhesion to symbiont|cell adhesion|cholesterol efflux|cholesterol homeostasis|cholesterol import|detection of lipopolysaccharide|high-density lipoprotein particle clearance|high-density lipoprotein particle remodeling|lipopolysaccharide transport|lipoprotein metabolic process|positive regulation of cholesterol storage|positive regulation of endothelial cell migration|positive regulation of nitric-oxide synthase activity|recognition of apoptotic cell|reverse cholesterol transport|triglyceride homeostasis|wound healing	caveola	1-phosphatidylinositol binding|apolipoprotein A-I binding|high-density lipoprotein particle receptor activity|lipopolysaccharide receptor activity|low-density lipoprotein particle binding|phosphatidylserine binding|transporter activity			kidney(1)	1	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;0.000116)|Epithelial(86;0.000415)|all cancers(50;0.00395)	Phosphatidylserine(DB00144)	CAGAAGCCTTCGTTGGGTGGG	0.587													22	25	---	---	---	---	PASS
AACS	65985	broad.mit.edu	37	12	125619330	125619330	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:125619330C>T	uc001uhc.2	+						AACS_uc001uhd.2_Intron|AACS_uc009zyh.2_Intron|AACS_uc009zyi.2_Intron	NM_023928	NP_076417	Q86V21	AACS_HUMAN	acetoacetyl-CoA synthetase						fatty acid metabolic process	cytosol	acetoacetate-CoA ligase activity|ATP binding			ovary(1)|liver(1)|central_nervous_system(1)	3	all_neural(191;0.101)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;9.82e-05)|Epithelial(86;0.000642)|all cancers(50;0.00843)		GACCTCTTCTCTCTTTCCAGT	0.617													3	9	---	---	---	---	PASS
TMEM132B	114795	broad.mit.edu	37	12	126138226	126138226	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:126138226C>T	uc001uhe.1	+	9	2215	c.2207C>T	c.(2206-2208)TCT>TTT	p.S736F	TMEM132B_uc001uhf.1_Missense_Mutation_p.S248F	NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	736	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)		ATGGTGGTGTCTGTCCAGGCA	0.418													29	35	---	---	---	---	PASS
TMEM132B	114795	broad.mit.edu	37	12	126139082	126139082	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:126139082G>A	uc001uhe.1	+	9	3071	c.3063G>A	c.(3061-3063)AGG>AGA	p.R1021R	TMEM132B_uc001uhf.1_Silent_p.R533R	NM_052907	NP_443139	Q14DG7	T132B_HUMAN	transmembrane protein 132B	1021	Cytoplasmic (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)		GCCCAAAGAGGAAGAGAGTCA	0.458													19	23	---	---	---	---	PASS
TMEM132D	121256	broad.mit.edu	37	12	129558431	129558431	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:129558431C>T	uc009zyl.1	-	9	3617	c.3289G>A	c.(3289-3291)GAA>AAA	p.E1097K	TMEM132D_uc001uia.2_Missense_Mutation_p.E635K	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	1097	Cytoplasmic (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		TACACATTTTCATGTAACCTC	0.493													24	28	---	---	---	---	PASS
TMEM132D	121256	broad.mit.edu	37	12	129558939	129558939	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:129558939G>A	uc009zyl.1	-	9	3109	c.2781C>T	c.(2779-2781)TTC>TTT	p.F927F	TMEM132D_uc001uia.2_Silent_p.F465F	NM_133448	NP_597705	Q14C87	T132D_HUMAN	transmembrane protein 132D precursor	927	Helical; (Potential).					integral to membrane				ovary(10)|pancreas(2)|upper_aerodigestive_tract(1)|skin(1)	14	all_neural(191;0.101)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0934)|Breast(359;0.133)		OV - Ovarian serous cystadenocarcinoma(86;0.000288)|Epithelial(86;0.0116)|all cancers(50;0.0246)		TGGCCAAACAGAAGACTCCCA	0.458													31	46	---	---	---	---	PASS
RIMBP2	23504	broad.mit.edu	37	12	130941081	130941081	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:130941081G>A	uc001uil.2	-	4	431	c.267C>T	c.(265-267)TTC>TTT	p.F89F	RIMBP2_uc001uim.2_5'UTR	NM_015347	NP_056162	O15034	RIMB2_HUMAN	RIM-binding protein 2	89						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)		TGAACTGTGGGAAAGGCTTGC	0.647													11	17	---	---	---	---	PASS
GPR133	283383	broad.mit.edu	37	12	131590383	131590383	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:131590383C>T	uc001uit.3	+	17	2419	c.1860C>T	c.(1858-1860)CTC>CTT	p.L620L	GPR133_uc010tbm.1_Silent_p.L652L|GPR133_uc009zyo.2_Intron|GPR133_uc001uiv.1_Silent_p.L139L|GPR133_uc009zyp.2_RNA	NM_198827	NP_942122	Q6QNK2	GP133_HUMAN	G protein-coupled receptor 133 precursor	620	Helical; Name=2; (Potential).				neuropeptide signaling pathway	integral to membrane|plasma membrane	G-protein coupled receptor activity			pancreas(5)|ovary(3)|skin(2)	10	all_neural(191;0.0982)|Medulloblastoma(191;0.163)			OV - Ovarian serous cystadenocarcinoma(86;1.68e-06)|all cancers(50;2.71e-06)|Epithelial(86;6.75e-06)		TCCTGCTGCTCATTAGTTTCC	0.652													11	10	---	---	---	---	PASS
EP400	57634	broad.mit.edu	37	12	132445164	132445164	+	5'UTR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:132445164C>T	uc001ujn.2	+	1					EP400_uc001ujl.2_5'UTR|EP400_uc001ujm.2_5'UTR|EP400_uc001ujj.1_5'UTR|EP400_uc001ujk.2_5'UTR	NM_015409	NP_056224	Q96L91	EP400_HUMAN	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)		GGGAGGTGATCATGCACCATG	0.517													3	2	---	---	---	---	PASS
EP400	57634	broad.mit.edu	37	12	132471210	132471210	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:132471210C>T	uc001ujn.2	+	5	2116	c.2081C>T	c.(2080-2082)GCC>GTC	p.A694V	EP400_uc001ujl.2_Missense_Mutation_p.A693V|EP400_uc001ujm.2_Missense_Mutation_p.A694V|EP400_uc001ujj.1_Missense_Mutation_p.A657V|EP400_uc001ujk.2_Missense_Mutation_p.A730V	NM_015409	NP_056224	Q96L91	EP400_HUMAN	E1A binding protein p400	730					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)		CCTTCCTCAGCCACCAATAAG	0.617													10	51	---	---	---	---	PASS
P2RX2	22953	broad.mit.edu	37	12	133196311	133196311	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:133196311C>T	uc001ukj.1	+	3	356	c.356C>T	c.(355-357)TCC>TTC	p.S119F	P2RX2_uc001uki.1_Missense_Mutation_p.S119F|P2RX2_uc001ukk.1_Missense_Mutation_p.S119F|P2RX2_uc001ukl.1_Intron|P2RX2_uc001ukm.1_Intron|P2RX2_uc001ukn.1_Intron|P2RX2_uc009zyt.1_Missense_Mutation_p.S119F|P2RX2_uc001uko.1_Intron	NM_170682	NP_733782	Q9UBL9	P2RX2_HUMAN	purinergic receptor P2X2 isoform A	119	Extracellular (Potential).				positive regulation of calcium ion transport into cytosol|positive regulation of calcium-mediated signaling|protein homooligomerization	integral to membrane	ATP binding|extracellular ATP-gated cation channel activity|identical protein binding|purinergic nucleotide receptor activity				0	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_epithelial(31;0.0767)		OV - Ovarian serous cystadenocarcinoma(86;2.32e-08)|Epithelial(86;8.62e-08)|all cancers(50;4.5e-06)		GCCACCCACTCCCAGACCCAG	0.731													7	5	---	---	---	---	PASS
POLE	5426	broad.mit.edu	37	12	133218806	133218806	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:133218806G>A	uc001uks.1	-	38	5174	c.5130C>T	c.(5128-5130)GAC>GAT	p.D1710D	POLE_uc001ukq.1_5'Flank|POLE_uc001ukr.1_Silent_p.D514D|POLE_uc010tbq.1_RNA	NM_006231	NP_006222	Q07864	DPOE1_HUMAN	DNA-directed DNA polymerase epsilon	1710					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)		CAGTGGCTTGGTCATCGAACT	0.572								DNA_polymerases_(catalytic_subunits)|Direct_reversal_of_damage					30	37	---	---	---	---	PASS
ANKLE2	23141	broad.mit.edu	37	12	133304630	133304630	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:133304630G>T	uc001ukx.2	-	12	2670	c.2603C>A	c.(2602-2604)TCG>TAG	p.S868*	ANKLE2_uc009zyw.1_Nonsense_Mutation_p.S223*	NM_015114	NP_055929	Q86XL3	ANKL2_HUMAN	ankyrin repeat and LEM domain containing 2	868						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)		CTGTCTGTCCGAGGGTGAGTA	0.577													5	105	---	---	---	---	PASS
CHFR	55743	broad.mit.edu	37	12	133435753	133435753	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:133435753G>A	uc001ulf.2	-	8	932	c.848C>T	c.(847-849)ACC>ATC	p.T283I	CHFR_uc001ulc.1_RNA|CHFR_uc001ule.2_Missense_Mutation_p.T271I|CHFR_uc010tbs.1_Missense_Mutation_p.T283I|CHFR_uc001uld.2_Missense_Mutation_p.T242I|CHFR_uc010tbt.1_Missense_Mutation_p.T191I	NM_001161344	NP_001154816	Q96EP1	CHFR_HUMAN	checkpoint with forkhead and ring finger domains	283					cell division|mitosis|mitotic cell cycle checkpoint|modification-dependent protein catabolic process|protein polyubiquitination	PML body	nucleotide binding|protein binding|ubiquitin-protein ligase activity|zinc ion binding			skin(1)	1	all_neural(191;0.0982)|Medulloblastoma(191;0.163)	all_cancers(7;0.00552)|all_epithelial(31;0.226)		OV - Ovarian serous cystadenocarcinoma(86;2.59e-08)|Epithelial(86;6.38e-07)|all cancers(50;1.56e-05)		CTCGTGGACGGTTTGGGCATT	0.572													14	22	---	---	---	---	PASS
TPTE2	93492	broad.mit.edu	37	13	19999111	19999111	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:19999111T>C	uc001umd.2	-	20	1653	c.1442A>G	c.(1441-1443)AAC>AGC	p.N481S	TPTE2_uc009zzk.2_RNA|TPTE2_uc009zzl.2_Missense_Mutation_p.N370S|TPTE2_uc001ume.2_Missense_Mutation_p.N404S|TPTE2_uc009zzm.2_Missense_Mutation_p.N152S|TPTE2_uc010tcm.1_RNA|TPTE2_uc010tcl.1_Missense_Mutation_p.N152S	NM_199254	NP_954863	Q6XPS3	TPTE2_HUMAN	TPTE and PTEN homologous inositol lipid	481	C2 tensin-type.					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)		AAAAGACGTGTTGAACCAGAA	0.294													4	12	---	---	---	---	PASS
XPO4	64328	broad.mit.edu	37	13	21362645	21362645	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:21362645G>A	uc001unq.3	-	20	3063	c.3027C>T	c.(3025-3027)TCC>TCT	p.S1009S		NM_022459	NP_071904	Q9C0E2	XPO4_HUMAN	exportin 4	1009					protein transport	cytoplasm|nucleus	protein binding			large_intestine(1)|ovary(1)|kidney(1)	3		all_cancers(29;5.05e-24)|all_epithelial(30;5.56e-20)|all_lung(29;2.38e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000521)|Epithelial(112;0.000892)|OV - Ovarian serous cystadenocarcinoma(117;0.0148)|Lung(94;0.0189)|LUSC - Lung squamous cell carcinoma(192;0.0548)		CTAATTCTAGGGAGTACATCA	0.308													12	19	---	---	---	---	PASS
XPO4	64328	broad.mit.edu	37	13	21362646	21362646	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:21362646G>A	uc001unq.3	-	20	3062	c.3026C>T	c.(3025-3027)TCC>TTC	p.S1009F		NM_022459	NP_071904	Q9C0E2	XPO4_HUMAN	exportin 4	1009					protein transport	cytoplasm|nucleus	protein binding			large_intestine(1)|ovary(1)|kidney(1)	3		all_cancers(29;5.05e-24)|all_epithelial(30;5.56e-20)|all_lung(29;2.38e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000521)|Epithelial(112;0.000892)|OV - Ovarian serous cystadenocarcinoma(117;0.0148)|Lung(94;0.0189)|LUSC - Lung squamous cell carcinoma(192;0.0548)		TAATTCTAGGGAGTACATCAG	0.308													12	20	---	---	---	---	PASS
XPO4	64328	broad.mit.edu	37	13	21417152	21417152	+	Silent	SNP	A	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:21417152A>C	uc001unq.3	-	6	645	c.609T>G	c.(607-609)GTT>GTG	p.V203V	XPO4_uc010tcr.1_Silent_p.V129V	NM_022459	NP_071904	Q9C0E2	XPO4_HUMAN	exportin 4	203					protein transport	cytoplasm|nucleus	protein binding			large_intestine(1)|ovary(1)|kidney(1)	3		all_cancers(29;5.05e-24)|all_epithelial(30;5.56e-20)|all_lung(29;2.38e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000521)|Epithelial(112;0.000892)|OV - Ovarian serous cystadenocarcinoma(117;0.0148)|Lung(94;0.0189)|LUSC - Lung squamous cell carcinoma(192;0.0548)		GCAGAACTTCAACAGTTAACA	0.378													11	21	---	---	---	---	PASS
XPO4	64328	broad.mit.edu	37	13	21442736	21442736	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:21442736C>T	uc001unq.3	-	2	210	c.174G>A	c.(172-174)TTG>TTA	p.L58L	XPO4_uc010tcr.1_Intron	NM_022459	NP_071904	Q9C0E2	XPO4_HUMAN	exportin 4	58					protein transport	cytoplasm|nucleus	protein binding			large_intestine(1)|ovary(1)|kidney(1)	3		all_cancers(29;5.05e-24)|all_epithelial(30;5.56e-20)|all_lung(29;2.38e-16)|Lung SC(185;0.0262)|Hepatocellular(188;0.244)		all cancers(112;0.000521)|Epithelial(112;0.000892)|OV - Ovarian serous cystadenocarcinoma(117;0.0148)|Lung(94;0.0189)|LUSC - Lung squamous cell carcinoma(192;0.0548)		AATACTTACCCAAAATATGCT	0.318													5	30	---	---	---	---	PASS
LATS2	26524	broad.mit.edu	37	13	21562372	21562372	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:21562372G>A	uc009zzs.2	-	4	1912	c.1547C>T	c.(1546-1548)CCG>CTG	p.P516L	LATS2_uc001unr.3_Missense_Mutation_p.P516L	NM_014572	NP_055387	Q9NRM7	LATS2_HUMAN	LATS, large tumor suppressor, homolog 2	516	PPxY motif.				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)		CGGGTAGGGCGGAGGCGGGCA	0.711													4	7	---	---	---	---	PASS
LATS2	26524	broad.mit.edu	37	13	21563271	21563271	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:21563271G>A	uc009zzs.2	-	4	1013	c.648C>T	c.(646-648)TTC>TTT	p.F216F	LATS2_uc001unr.3_Silent_p.F216F	NM_014572	NP_055387	Q9NRM7	LATS2_HUMAN	LATS, large tumor suppressor, homolog 2	216					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)		CGACTCCGGGGAAAAGGTAGT	0.711													3	9	---	---	---	---	PASS
SAP18	10284	broad.mit.edu	37	13	21715094	21715094	+	Silent	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:21715094C>A	uc001uns.2	+	2	238	c.199C>A	c.(199-201)CGG>AGG	p.R67R		NM_005870	NP_005861	O00422	SAP18_HUMAN	Sin3A-associated protein, 18kDa	48					regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|plasma membrane	protein binding|transcription corepressor activity				0		all_cancers(29;2.16e-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;9.79e-05)|Epithelial(112;0.000292)|OV - Ovarian serous cystadenocarcinoma(117;0.00276)|Lung(94;0.0941)		CGAGTTCTCCCGGGGAAATGT	0.587													4	55	---	---	---	---	PASS
MRP63	78988	broad.mit.edu	37	13	21751173	21751173	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:21751173G>A	uc001unw.2	+	2	608	c.118G>A	c.(118-120)GAG>AAG	p.E40K	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	40											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)		CCGCCGCCTGGAGATCGAGGC	0.697													9	30	---	---	---	---	PASS
SACS	26278	broad.mit.edu	37	13	23928927	23928927	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:23928927C>T	uc001uon.2	-	8	2413	c.1824G>A	c.(1822-1824)GTG>GTA	p.V608V	SACS_uc001uoo.2_Silent_p.V461V|SACS_uc001uop.1_Silent_p.V395V|SACS_uc001uoq.1_Silent_p.V461V	NM_014363	NP_055178	Q9NZJ4	SACS_HUMAN	sacsin	608					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)		CAGCAGCATCCACATTCCCTG	0.532													10	32	---	---	---	---	PASS
TNFRSF19	55504	broad.mit.edu	37	13	24167481	24167481	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:24167481C>T	uc001uov.1	+						TNFRSF19_uc001uot.2_Intron|TNFRSF19_uc010tcu.1_Intron|TNFRSF19_uc001uow.2_Intron|TNFRSF19_uc001uou.2_Intron	NM_018647	NP_061117	Q9NS68	TNR19_HUMAN	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)		TTTTTTTTTTCAGTCATGTAA	0.348													11	25	---	---	---	---	PASS
ATP12A	479	broad.mit.edu	37	13	25284959	25284959	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:25284959C>A	uc001upp.2	+	21	3114	c.2927C>A	c.(2926-2928)TCA>TAA	p.S976*	ATP12A_uc010aaa.2_Nonsense_Mutation_p.S982*	NM_001676	NP_001667	P54707	AT12A_HUMAN	hydrogen/potassium-exchanging ATPase 12A	976	Helical; (Potential).				ATP biosynthetic process	hydrogen:potassium-exchanging ATPase complex	ATP binding|hydrogen:potassium-exchanging ATPase activity|metal ion binding			ovary(2)|central_nervous_system(2)|large_intestine(1)|breast(1)	6		Lung SC(185;0.0225)|Breast(139;0.077)		all cancers(112;0.0307)|Epithelial(112;0.086)|OV - Ovarian serous cystadenocarcinoma(117;0.228)	Esomeprazole(DB00736)|Pantoprazole(DB00213)	GGGATCACCTCACAGATCATC	0.488													21	28	---	---	---	---	PASS
PABPC3	5042	broad.mit.edu	37	13	25670880	25670880	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:25670880G>A	uc001upy.2	+	1	605	c.544G>A	c.(544-546)GAA>AAA	p.E182K		NM_030979	NP_112241	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	182					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)		ACGAGAAGCTGAACTTGGAGC	0.413													16	33	---	---	---	---	PASS
PABPC3	5042	broad.mit.edu	37	13	25671266	25671266	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:25671266C>T	uc001upy.2	+	1	991	c.930C>T	c.(928-930)CTC>CTT	p.L310L		NM_030979	NP_112241	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	310	RRM 4.				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)		ATGAACGTCTCCGGAAAGCGT	0.418													63	130	---	---	---	---	PASS
PABPC3	5042	broad.mit.edu	37	13	25671267	25671267	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:25671267C>T	uc001upy.2	+	1	992	c.931C>T	c.(931-933)CGG>TGG	p.R311W		NM_030979	NP_112241	Q9H361	PABP3_HUMAN	poly(A) binding protein, cytoplasmic 3	311	RRM 4.				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)		TGAACGTCTCCGGAAAGCGTT	0.418													65	129	---	---	---	---	PASS
GPR12	2835	broad.mit.edu	37	13	27333080	27333080	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:27333080G>A	uc010aal.2	-	2	1107	c.885C>T	c.(883-885)ATC>ATT	p.I295I	GPR12_uc010tdl.1_Silent_p.I136I	NM_005288	NP_005279	P47775	GPR12_HUMAN	G protein-coupled receptor 12	295	Helical; Name=7; (Potential).					integral to plasma membrane					0	Colorectal(5;5.77e-05)	Breast(139;0.198)		Epithelial(112;9.37e-07)|OV - Ovarian serous cystadenocarcinoma(117;1.16e-06)|all cancers(112;8.31e-06)|GBM - Glioblastoma multiforme(144;0.00121)|Lung(94;0.111)|LUSC - Lung squamous cell carcinoma(192;0.184)		CAGGGTTGATGATGGAATTGT	0.532													11	39	---	---	---	---	PASS
FLT3	2322	broad.mit.edu	37	13	28588655	28588655	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:28588655C>T	uc001urw.2	-	23	2875	c.2793G>A	c.(2791-2793)AGG>AGA	p.R931R	FLT3_uc010aao.2_RNA|FLT3_uc010tdn.1_Silent_p.R890R	NM_004119	NP_004110	P36888	FLT3_HUMAN	fms-related tyrosine kinase 3 precursor	931	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)	ATGGCCGTTTCCTTGAGTCAA	0.403			Mis|O		AML|ALL								12	46	---	---	---	---	PASS
FLT1	2321	broad.mit.edu	37	13	28883074	28883074	+	Intron	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:28883074A>T	uc001usb.3	-						FLT1_uc010aap.2_Intron|FLT1_uc010aaq.2_Intron|FLT1_uc001usa.3_Intron	NM_002019	NP_002010	P17948	VGFR1_HUMAN	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)	TCTAATGAAGAAACAGAAAGA	0.408													7	19	---	---	---	---	PASS
MTUS2	23281	broad.mit.edu	37	13	29599057	29599057	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:29599057C>T	uc001usl.3	+	1	310	c.252C>T	c.(250-252)TTC>TTT	p.F84F		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	74						cytoplasm|microtubule	microtubule binding|protein homodimerization activity				0						GTACCCATTTCCATAAGGAAT	0.463													11	22	---	---	---	---	PASS
MTUS2	23281	broad.mit.edu	37	13	29600876	29600876	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:29600876G>A	uc001usl.3	+	1	2129	c.2071G>A	c.(2071-2073)GAA>AAA	p.E691K		NM_001033602	NP_001028774	Q5JR59	MTUS2_HUMAN	hypothetical protein LOC23281 isoform a	681	Mediates interaction with MAPRE1.					cytoplasm|microtubule	microtubule binding|protein homodimerization activity	p.E691K(1)			0						TCTTCCCCACGAAGAGAAGGC	0.582													7	38	---	---	---	---	PASS
USPL1	10208	broad.mit.edu	37	13	31233097	31233097	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:31233097C>T	uc001utc.2	+	9	3315	c.2883C>T	c.(2881-2883)TCC>TCT	p.S961S	USPL1_uc001utd.2_Silent_p.S632S|USPL1_uc001ute.1_Silent_p.S632S	NM_005800	NP_005791	Q5W0Q7	USPL1_HUMAN	ubiquitin specific peptidase like 1	961					ubiquitin-dependent protein catabolic process		ubiquitin thiolesterase activity			pancreas(2)|skin(1)	3		Lung SC(185;0.0257)|Breast(139;0.203)		all cancers(112;0.0306)|Epithelial(112;0.131)|OV - Ovarian serous cystadenocarcinoma(117;0.134)		CTGGTGTTTCCCTGTACAGTA	0.408													38	59	---	---	---	---	PASS
RXFP2	122042	broad.mit.edu	37	13	32352681	32352681	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:32352681C>T	uc001utt.2	+	9	817	c.746C>T	c.(745-747)CCC>CTC	p.P249L	RXFP2_uc010aba.2_Missense_Mutation_p.P232L	NM_130806	NP_570718	Q8WXD0	RXFP2_HUMAN	relaxin/insulin-like family peptide receptor 2	249	Extracellular (Potential).|LRR 5.					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)		GAAGCTCTTCCCAAGCAGATG	0.323													31	95	---	---	---	---	PASS
FRY	10129	broad.mit.edu	37	13	32818196	32818196	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:32818196C>T	uc001utx.2	+	47	7201	c.6705C>T	c.(6703-6705)CTC>CTT	p.L2235L	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	2235					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)		AGAAGGGCCTCCCTAGTGTGC	0.527													11	25	---	---	---	---	PASS
FRY	10129	broad.mit.edu	37	13	32818197	32818197	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:32818197C>T	uc001utx.2	+	47	7202	c.6706C>T	c.(6706-6708)CCT>TCT	p.P2236S	FRY_uc010tdw.1_RNA	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	2236					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)		GAAGGGCCTCCCTAGTGTGCA	0.527													11	26	---	---	---	---	PASS
FRY	10129	broad.mit.edu	37	13	32841364	32841364	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:32841364C>T	uc001utx.2	+	55	8500	c.8004C>T	c.(8002-8004)ATC>ATT	p.I2668I	FRY_uc010tdw.1_RNA|FRY_uc001uty.2_Silent_p.I223I|FRY_uc001utz.2_Silent_p.I193I|FRY_uc010tdx.1_Silent_p.I38I	NM_023037	NP_075463	Q5TBA9	FRY_HUMAN	furry homolog	2668					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)		TCTCAGCCATCCTTGCCGCCT	0.557													23	52	---	---	---	---	PASS
BRCA2	675	broad.mit.edu	37	13	32915094	32915094	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:32915094C>T	uc001uub.1	+	11	6829	c.6602C>T	c.(6601-6603)TCT>TTT	p.S2201F		NM_000059	NP_000050	P51587	BRCA2_HUMAN	breast cancer 2, early onset	2201					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)		GAAACTTTTTCTGATGTTCCT	0.328			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)			12	19	---	---	---	---	PASS
NBEA	26960	broad.mit.edu	37	13	36158054	36158054	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:36158054C>T	uc001uvb.2	+	46	7261	c.7055C>T	c.(7054-7056)CCC>CTC	p.P2352L	NBEA_uc010abi.2_Missense_Mutation_p.P1008L|NBEA_uc010tee.1_Missense_Mutation_p.P145L|NBEA_uc010tef.1_Missense_Mutation_p.P145L|NBEA_uc010teg.1_Missense_Mutation_p.P145L	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	2352	BEACH.					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)		GCTTTGAACCCCAAGAGAGCT	0.323													23	29	---	---	---	---	PASS
NBEA	26960	broad.mit.edu	37	13	36158055	36158055	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:36158055C>T	uc001uvb.2	+	46	7262	c.7056C>T	c.(7054-7056)CCC>CCT	p.P2352P	NBEA_uc010abi.2_Silent_p.P1008P|NBEA_uc010tee.1_Silent_p.P145P|NBEA_uc010tef.1_Silent_p.P145P|NBEA_uc010teg.1_Silent_p.P145P	NM_015678	NP_056493	Q8NFP9	NBEA_HUMAN	neurobeachin	2352	BEACH.					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)		CTTTGAACCCCAAGAGAGCTG	0.323													23	30	---	---	---	---	PASS
DCLK1	9201	broad.mit.edu	37	13	36699922	36699922	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:36699922G>A	uc001uvf.2	-	2	586	c.353C>T	c.(352-354)TCC>TTC	p.S118F		NM_004734	NP_004725	O15075	DCLK1_HUMAN	doublecortin-like kinase 1	118	Doublecortin 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)		GTCCAGGCTGGAAATCTTCTT	0.532													12	35	---	---	---	---	PASS
CSNK1A1L	122011	broad.mit.edu	37	13	37679192	37679192	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:37679192G>A	uc001uwm.1	-	1	610	c.202C>T	c.(202-204)CAA>TAA	p.Q68*		NM_145203	NP_660204	Q8N752	KC1AL_HUMAN	casein kinase 1, alpha 1-like	68	Protein kinase.				Wnt receptor signaling pathway	cytoplasm	ATP binding|protein serine/threonine kinase activity			large_intestine(1)	1		Lung NSC(96;7.97e-05)|Breast(139;0.0615)|Lung SC(185;0.0743)|Prostate(109;0.109)		all cancers(112;3.58e-07)|Epithelial(112;1.29e-05)|OV - Ovarian serous cystadenocarcinoma(117;0.00695)|BRCA - Breast invasive adenocarcinoma(63;0.0117)|GBM - Glioblastoma multiforme(144;0.0407)		ACCCCACCTTGAAGAATCGTG	0.527													29	54	---	---	---	---	PASS
TRPC4	7223	broad.mit.edu	37	13	38211570	38211570	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:38211570G>A	uc001uws.2	-	11	2639	c.2404C>T	c.(2404-2406)CTG>TTG	p.L802L	TRPC4_uc010abv.2_Silent_p.L382L|TRPC4_uc001uwt.2_Intron|TRPC4_uc010tey.1_Intron|TRPC4_uc010abw.2_Silent_p.L629L|TRPC4_uc010abx.2_Silent_p.L807L|TRPC4_uc010aby.2_Intron	NM_016179	NP_057263	Q9UBN4	TRPC4_HUMAN	transient receptor potential cation channel,	802	Binds to ITPR1, ITPR2 and ITPR3.|Cytoplasmic (Potential).				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)		GGATGAATCAGGGTGGTTAAA	0.453													14	23	---	---	---	---	PASS
KCTD4	386618	broad.mit.edu	37	13	45768509	45768509	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:45768509C>T	uc001uzx.3	-	2	598	c.194G>A	c.(193-195)GGA>GAA	p.G65E	GTF2F2_uc001uzv.2_Intron|GTF2F2_uc001uzw.2_Intron	NM_198404	NP_940686	Q8WVF5	KCTD4_HUMAN	potassium channel tetramerisation domain	65	BTB.					voltage-gated potassium channel complex	voltage-gated potassium channel activity				0		Lung NSC(96;6.55e-05)|Breast(139;0.00378)|Prostate(109;0.00438)|Lung SC(185;0.0262)|Hepatocellular(98;0.0524)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000249)|BRCA - Breast invasive adenocarcinoma(63;0.207)		GAGGATTTTTCCATTTACTAT	0.413													12	89	---	---	---	---	PASS
COG3	83548	broad.mit.edu	37	13	46053136	46053136	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:46053136C>T	uc001vak.2	+						COG3_uc010tfu.1_Intron|COG3_uc001vai.2_Intron|COG3_uc001vaj.1_Intron|COG3_uc010tfv.1_Intron|COG3_uc010aci.2_Intron	NM_031431	NP_113619	Q96JB2	COG3_HUMAN	component of golgi transport complex 3						ER to Golgi vesicle-mediated transport|intra-Golgi vesicle-mediated transport|intracellular protein transport|protein glycosylation|protein localization to organelle|protein stabilization|retrograde vesicle-mediated transport, Golgi to ER	cis-Golgi network|Golgi cisterna membrane|Golgi transport complex	protein binding|protein transporter activity			breast(1)|skin(1)	2		Lung NSC(96;0.000145)|Breast(56;0.000596)|Prostate(109;0.00438)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000124)		CTCTGTTTTTCCAGTTTTTCT	0.338													8	20	---	---	---	---	PASS
SPERT	220082	broad.mit.edu	37	13	46287426	46287426	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:46287426C>T	uc001van.1	+	3	346	c.266C>T	c.(265-267)TCC>TTC	p.S89F	SPERT_uc001vao.2_Missense_Mutation_p.S53F	NM_152719	NP_689932	Q8NA61	SPERT_HUMAN	spermatid associated	89						cytoplasmic membrane-bounded vesicle				central_nervous_system(1)|pancreas(1)	2		Breast(56;0.000819)|Lung NSC(96;0.00227)|Prostate(109;0.00703)|Lung SC(185;0.0367)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;7.26e-05)		AGCCAGCACTCCTATCCACTG	0.682													10	13	---	---	---	---	PASS
SPERT	220082	broad.mit.edu	37	13	46288346	46288346	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:46288346G>A	uc001van.1	+	3	1266	c.1186G>A	c.(1186-1188)GAG>AAG	p.E396K	SPERT_uc001vao.2_Missense_Mutation_p.E360K	NM_152719	NP_689932	Q8NA61	SPERT_HUMAN	spermatid associated	396	Potential.					cytoplasmic membrane-bounded vesicle				central_nervous_system(1)|pancreas(1)	2		Breast(56;0.000819)|Lung NSC(96;0.00227)|Prostate(109;0.00703)|Lung SC(185;0.0367)|Hepatocellular(98;0.0556)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;7.26e-05)		CTTCCAGGAGGAGAACAAGGC	0.617													4	14	---	---	---	---	PASS
ZC3H13	23091	broad.mit.edu	37	13	46543999	46543999	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:46543999G>A	uc010tfw.1	-	13	2686	c.2680C>T	c.(2680-2682)CGT>TGT	p.R894C	ZC3H13_uc001vaq.2_5'Flank|ZC3H13_uc001vas.1_Missense_Mutation_p.R894C|ZC3H13_uc001vat.1_Missense_Mutation_p.R894C	NM_015070	NP_055885	Q5T200	ZC3HD_HUMAN	zinc finger CCCH-type containing 13	894							nucleic acid binding|zinc ion binding			ovary(1)|lung(1)	2		Lung NSC(96;7.26e-05)|Breast(56;0.000118)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;4.18e-05)		TCTGGTTTACGATCCTCCTCT	0.453													55	118	---	---	---	---	PASS
CPB2	1361	broad.mit.edu	37	13	46638865	46638865	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:46638865C>T	uc001vaw.2	-	8	781	c.714G>A	c.(712-714)TGG>TGA	p.W238*	uc001vau.1_Intron|uc001vav.1_Intron|CPB2_uc001vax.2_Nonsense_Mutation_p.W201*	NM_001872	NP_001863	Q96IY4	CBPB2_HUMAN	plasma carboxypeptidase B2 isoform a	238					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)		GGTTCTTTCTCCACATTCGAT	0.423													17	29	---	---	---	---	PASS
CPB2	1361	broad.mit.edu	37	13	46638866	46638866	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:46638866C>T	uc001vaw.2	-	8	780	c.713G>A	c.(712-714)TGG>TAG	p.W238*	uc001vau.1_Intron|uc001vav.1_Intron|CPB2_uc001vax.2_Nonsense_Mutation_p.W201*	NM_001872	NP_001863	Q96IY4	CBPB2_HUMAN	plasma carboxypeptidase B2 isoform a	238					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)		GTTCTTTCTCCACATTCGATT	0.423													17	29	---	---	---	---	PASS
LCP1	3936	broad.mit.edu	37	13	46708349	46708349	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:46708349G>A	uc001vaz.3	-	14	1665	c.1539C>T	c.(1537-1539)GGC>GGT	p.G513G	LCP1_uc010ack.2_Silent_p.G82G|LCP1_uc001vay.3_Silent_p.G110G|LCP1_uc001vba.3_Silent_p.G513G	NM_002298	NP_002289	P13796	PLSL_HUMAN	L-plastin	513	Actin-binding 2.				regulation of intracellular protein transport|T cell activation involved in immune response	cell junction|cytosol|ruffle membrane	calcium ion binding			lung(4)|ovary(3)	7		Lung NSC(96;1.27e-05)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;5.39e-05)		TGACCTTCTGGCCACCACCAA	0.343			T	BCL6	NHL 								11	35	---	---	---	---	PASS
C13orf18	80183	broad.mit.edu	37	13	46930640	46930640	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:46930640G>A	uc010acl.2	-						C13orf18_uc001vbf.3_Intron|C13orf18_uc001vbg.3_Intron|C13orf18_uc010tfz.1_Intron|C13orf18_uc010acm.2_Intron|C13orf18_uc010acn.2_Intron|C13orf18_uc001vbe.3_Intron|C13orf18_uc001vbh.3_Intron|C13orf18_uc001vbi.3_Intron|C13orf18_uc010aco.1_Intron	NM_025113	NP_079389	Q9H714	CM018_HUMAN	hypothetical protein LOC80183												0		Lung NSC(96;2.31e-05)|Breast(56;8.04e-05)|Prostate(109;0.00217)|Hepatocellular(98;0.0207)|Lung SC(185;0.0262)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;2.19e-05)		TCCTGAATACGAAAAATAATA	0.423													7	20	---	---	---	---	PASS
CYSLTR2	57105	broad.mit.edu	37	13	49281181	49281181	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:49281181C>T	uc010acx.1	+	6	911	c.228C>T	c.(226-228)TTC>TTT	p.F76F	CYSLTR2_uc010acy.1_Silent_p.F76F|CYSLTR2_uc010acz.1_Silent_p.F76F|CYSLTR2_uc010ada.1_Silent_p.F76F|CYSLTR2_uc010adb.1_Silent_p.F76F|CYSLTR2_uc010adc.1_Silent_p.F76F|CYSLTR2_uc010add.1_Silent_p.F76F|CYSLTR2_uc010acw.1_Silent_p.F76F|CYSLTR2_uc001vck.2_Silent_p.F76F	NM_020377	NP_065110	Q9NS75	CLTR2_HUMAN	cysteinyl leukotriene receptor 2	76	Helical; Name=2; (Potential).				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)	TGAACGTTTTCATGCTAAATC	0.413													7	26	---	---	---	---	PASS
CDADC1	81602	broad.mit.edu	37	13	49842022	49842022	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:49842022T>G	uc001vcu.2	+	5	903	c.827T>G	c.(826-828)ATG>AGG	p.M276R	CDADC1_uc001vcs.1_RNA|CDADC1_uc001vct.1_Missense_Mutation_p.M158R|CDADC1_uc010tgk.1_Missense_Mutation_p.M78R|CDADC1_uc001vcv.2_RNA	NM_030911	NP_112173	Q9BWV3	CDAC1_HUMAN	cytidine and dCMP deaminase domain containing 1	276							hydrolase activity|zinc ion binding			upper_aerodigestive_tract(1)	1		Lung NSC(96;0.000705)|Breast(56;0.0011)|Prostate(109;0.00446)|Hepatocellular(98;0.0556)|Glioma(44;0.236)	KIRC - Kidney renal clear cell carcinoma(9;0.206)	GBM - Glioblastoma multiforme(99;1.06e-08)|COAD - Colon adenocarcinoma(199;0.216)		AGGCAAAACATGAAAGACCTT	0.363													10	28	---	---	---	---	PASS
INTS6	26512	broad.mit.edu	37	13	51952577	51952577	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:51952577G>A	uc001vfk.2	-	12	2014	c.1400C>T	c.(1399-1401)TCT>TTT	p.S467F	INTS6_uc001vfi.2_Missense_Mutation_p.S151F|INTS6_uc001vfj.2_Missense_Mutation_p.S454F|INTS6_uc001vfl.2_Missense_Mutation_p.S289F	NM_012141	NP_036273	Q9UL03	INT6_HUMAN	integrator complex subunit 6 isoform a	467					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)		GACTCGATCAGATTCTATTTT	0.308													11	21	---	---	---	---	PASS
WDFY2	115825	broad.mit.edu	37	13	52325496	52325496	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:52325496C>T	uc001vfp.2	+	8	1116	c.776C>T	c.(775-777)TCC>TTC	p.S259F	WDFY2_uc010ads.1_Missense_Mutation_p.S259F|WDFY2_uc010adt.1_RNA	NM_052950	NP_443182	Q96P53	WDFY2_HUMAN	WD repeat and FYVE domain containing 2	259	WD 6.						metal ion binding				0		Breast(56;0.000208)|Lung NSC(96;0.000517)|Prostate(109;0.0041)|Hepatocellular(98;0.0652)|Myeloproliferative disorder(33;0.164)|all_neural(104;0.191)		GBM - Glioblastoma multiforme(99;9e-08)		CAATTGATCTCCTGTGGCGGT	0.562													8	34	---	---	---	---	PASS
CCDC70	83446	broad.mit.edu	37	13	52440034	52440034	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:52440034G>A	uc001vfu.3	+	2	816	c.520G>A	c.(520-522)GAG>AAG	p.E174K	uc010tgr.1_RNA	NM_031290	NP_112580	Q6NSX1	CCD70_HUMAN	coiled-coil domain containing 70 precursor	174						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)		CCTTGAGGGGGAGAAAGCCCT	0.557													35	69	---	---	---	---	PASS
ATP7B	540	broad.mit.edu	37	13	52548333	52548333	+	Silent	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:52548333G>T	uc001vfw.2	-	2	1180	c.1023C>A	c.(1021-1023)TCC>TCA	p.S341S	ATP7B_uc010adv.2_Silent_p.S341S|ATP7B_uc001vfx.2_Silent_p.S341S|ATP7B_uc001vfy.2_Intron|ATP7B_uc010tgt.1_Silent_p.S341S|ATP7B_uc010tgu.1_Silent_p.S341S|ATP7B_uc010tgv.1_Silent_p.S341S|ATP7B_uc010tgw.1_Silent_p.S309S	NM_000053	NP_000044	P35670	ATP7B_HUMAN	ATPase, Cu++ transporting, beta polypeptide	341	Poly-Ser.|Cytoplasmic (Potential).				ATP biosynthetic process|cellular copper ion homeostasis|copper ion import|response to copper ion|sequestering of calcium ion	Golgi membrane|integral to plasma membrane|late endosome|mitochondrion	ATP binding|copper ion binding|copper-exporting ATPase activity|protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(56;0.000207)|Lung NSC(96;0.000845)|Prostate(109;0.0235)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;5.25e-08)		AATGAGAACTGGAAGACCTGT	0.557									Wilson_disease				27	56	---	---	---	---	PASS
ATP7B	540	broad.mit.edu	37	13	52548915	52548915	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:52548915G>A	uc001vfw.2	-	2	598	c.441C>T	c.(439-441)CTC>CTT	p.L147L	ATP7B_uc010adv.2_Silent_p.L147L|ATP7B_uc001vfx.2_Silent_p.L147L|ATP7B_uc001vfy.2_Silent_p.L147L|ATP7B_uc010tgt.1_Silent_p.L147L|ATP7B_uc010tgu.1_Silent_p.L147L|ATP7B_uc010tgv.1_Silent_p.L147L|ATP7B_uc010tgw.1_Silent_p.L115L	NM_000053	NP_000044	P35670	ATP7B_HUMAN	ATPase, Cu++ transporting, beta polypeptide	147	HMA 2.|Cytoplasmic (Potential).				ATP biosynthetic process|cellular copper ion homeostasis|copper ion import|response to copper ion|sequestering of calcium ion	Golgi membrane|integral to plasma membrane|late endosome|mitochondrion	ATP binding|copper ion binding|copper-exporting ATPase activity|protein binding			ovary(1)|central_nervous_system(1)|skin(1)	3		Breast(56;0.000207)|Lung NSC(96;0.000845)|Prostate(109;0.0235)|Hepatocellular(98;0.065)|all_neural(104;0.19)		GBM - Glioblastoma multiforme(99;5.25e-08)		CCTCCACCCGGAGCTTGACCA	0.577									Wilson_disease				17	12	---	---	---	---	PASS
UTP14C	9724	broad.mit.edu	37	13	52604646	52604646	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:52604646C>T	uc001vgb.2	+	2	2241	c.1706C>T	c.(1705-1707)TCC>TTC	p.S569F	UTP14C_uc001vgc.2_RNA	NM_021645	NP_067677	Q5TAP6	UT14C_HUMAN	UTP14, U3 small nucleolar ribonucleoprotein,	569					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)		CAGTCTCCTTCCGTGAGGTCT	0.483													29	83	---	---	---	---	PASS
THSD1	55901	broad.mit.edu	37	13	52952155	52952155	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:52952155G>A	uc001vgo.2	-	5	2495	c.1950C>T	c.(1948-1950)TTC>TTT	p.F650F	THSD1_uc001vgp.2_Silent_p.F597F|THSD1_uc010tgz.1_Silent_p.F271F|THSD1_uc010aea.2_Silent_p.F111F	NM_018676	NP_061146	Q9NS62	THSD1_HUMAN	thrombospondin type I domain-containing 1	650	Cytoplasmic (Potential).					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)		CTGTCCTCCTGAAATGGGCGT	0.632													4	13	---	---	---	---	PASS
THSD1	55901	broad.mit.edu	37	13	52971669	52971669	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:52971669A>G	uc001vgo.2	-	3	1264	c.719T>C	c.(718-720)TTT>TCT	p.F240S	THSD1_uc001vgp.2_Missense_Mutation_p.F240S|THSD1_uc010tgz.1_Intron|THSD1_uc010aea.2_Intron	NM_018676	NP_061146	Q9NS62	THSD1_HUMAN	thrombospondin type I domain-containing 1	240	Extracellular (Potential).					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)		TTTGTATCCAAATTTCTGGGC	0.562													6	13	---	---	---	---	PASS
LECT1	11061	broad.mit.edu	37	13	53282789	53282789	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:53282789G>A	uc001vhf.2	-	6	782	c.671C>T	c.(670-672)ACC>ATC	p.T224I	LECT1_uc001vhg.2_Missense_Mutation_p.T224I|LECT1_uc001vhh.2_Missense_Mutation_p.T213I	NM_007015	NP_008946	O75829	LECT1_HUMAN	leukocyte cell derived chemotaxin 1 isoform 1	224					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)		TCTTTTTGTGGTAGTTGGAAC	0.393													28	41	---	---	---	---	PASS
TDRD3	81550	broad.mit.edu	37	13	61041372	61041372	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:61041372C>T	uc001via.2	+	5	863	c.75C>T	c.(73-75)AGC>AGT	p.S25S	TDRD3_uc010aef.2_5'UTR|TDRD3_uc001vhz.3_Silent_p.S25S|TDRD3_uc010aeg.2_Silent_p.S118S|TDRD3_uc001vib.3_Silent_p.S25S	NM_030794	NP_110421	Q9H7E2	TDRD3_HUMAN	tudor domain containing 3 isoform 2	25					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)		TTTGCTTTAGCCTGAACACAC	0.269													25	46	---	---	---	---	PASS
TDRD3	81550	broad.mit.edu	37	13	61041373	61041373	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:61041373C>T	uc001via.2	+	5	864	c.76C>T	c.(76-78)CTG>TTG	p.L26L	TDRD3_uc010aef.2_5'UTR|TDRD3_uc001vhz.3_Silent_p.L26L|TDRD3_uc010aeg.2_Silent_p.L119L|TDRD3_uc001vib.3_Silent_p.L26L	NM_030794	NP_110421	Q9H7E2	TDRD3_HUMAN	tudor domain containing 3 isoform 2	26					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)		TTGCTTTAGCCTGAACACACC	0.274													25	46	---	---	---	---	PASS
PCDH9	5101	broad.mit.edu	37	13	67801516	67801516	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:67801516C>T	uc001vik.2	-	2	1749	c.1057G>A	c.(1057-1059)GAT>AAT	p.D353N	PCDH9_uc001vil.2_Missense_Mutation_p.D353N|PCDH9_uc010thl.1_Missense_Mutation_p.D353N|PCDH9_uc001vin.3_Missense_Mutation_p.D353N	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	353	Extracellular (Potential).|Cadherin 3.				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)		GGAGGGTTATCATTTACATCG	0.448													24	56	---	---	---	---	PASS
PCDH9	5101	broad.mit.edu	37	13	67802142	67802142	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:67802142G>A	uc001vik.2	-	2	1123	c.431C>T	c.(430-432)TCT>TTT	p.S144F	PCDH9_uc001vil.2_Missense_Mutation_p.S144F|PCDH9_uc010thl.1_Missense_Mutation_p.S144F|PCDH9_uc001vin.3_Missense_Mutation_p.S144F	NM_203487	NP_982354	Q9HC56	PCDH9_HUMAN	protocadherin 9 isoform 1 precursor	144	Extracellular (Potential).|Cadherin 2.				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)		GATGACAGGAGATGGAAACAT	0.408													24	56	---	---	---	---	PASS
DACH1	1602	broad.mit.edu	37	13	72053449	72053449	+	Splice_Site	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:72053449C>T	uc010thn.1	-	9	2146	c.1723_splice	c.e9-1	p.G575_splice	DACH1_uc010tho.1_Splice_Site_p.G427_splice|DACH1_uc010thp.1_Splice_Site_p.G373_splice	NM_080759	NP_542937	Q9UI36	DACH1_HUMAN	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)		TCAACAGCCCCTGTACAAAGA	0.358													8	54	---	---	---	---	PASS
PIBF1	10464	broad.mit.edu	37	13	73357624	73357624	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:73357624C>T	uc001vjc.2	+	2	322	c.17C>T	c.(16-18)TCA>TTA	p.S6L	PIBF1_uc001vja.1_Missense_Mutation_p.S6L|PIBF1_uc010aeo.1_RNA|PIBF1_uc001vjb.2_Missense_Mutation_p.S6L|PIBF1_uc010aep.2_Intron|DIS3_uc001viy.3_5'Flank|DIS3_uc001vix.3_5'Flank|DIS3_uc001viz.2_5'Flank	NM_006346	NP_006337	Q8WXW3	PIBF1_HUMAN	progesterone-induced blocking factor 1	6						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)		CGAAAAATTTCAAAGGAGTCA	0.279													21	38	---	---	---	---	PASS
PIBF1	10464	broad.mit.edu	37	13	73428285	73428285	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:73428285C>T	uc001vjc.2	+	10	1619	c.1314C>T	c.(1312-1314)CTC>CTT	p.L438L	PIBF1_uc001vja.1_Silent_p.L438L|PIBF1_uc010aeo.1_RNA|PIBF1_uc001vjb.2_Silent_p.L438L|PIBF1_uc010aep.2_Intron	NM_006346	NP_006337	Q8WXW3	PIBF1_HUMAN	progesterone-induced blocking factor 1	438						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)		ACGATCAGCTCTTAGACAGGT	0.328													8	42	---	---	---	---	PASS
TBC1D4	9882	broad.mit.edu	37	13	75876395	75876395	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:75876395C>T	uc001vjl.1	-	16	3242	c.2895G>A	c.(2893-2895)GCG>GCA	p.A965A	TBC1D4_uc010tht.1_Silent_p.A175A|TBC1D4_uc010thu.1_Silent_p.A122A|TBC1D4_uc010aer.2_Silent_p.A957A|TBC1D4_uc010aes.2_Silent_p.A902A	NM_014832	NP_055647	O60343	TBCD4_HUMAN	TBC1 domain family, member 4	965	Rab-GAP TBC.					cytoplasm	Rab GTPase activator activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Prostate(6;0.014)|Breast(118;0.0982)		GBM - Glioblastoma multiforme(99;0.0116)		CCACGAGAATCGCATGCTGCT	0.388													11	30	---	---	---	---	PASS
TBC1D4	9882	broad.mit.edu	37	13	75886895	75886895	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:75886895G>A	uc001vjl.1	-	13	2709	c.2362C>T	c.(2362-2364)CCC>TCC	p.P788S	TBC1D4_uc010tht.1_5'UTR|TBC1D4_uc010thu.1_5'UTR|TBC1D4_uc010aer.2_Missense_Mutation_p.P780S|TBC1D4_uc010aes.2_Missense_Mutation_p.P725S	NM_014832	NP_055647	O60343	TBCD4_HUMAN	TBC1 domain family, member 4	788						cytoplasm	Rab GTPase activator activity			ovary(4)|central_nervous_system(1)|skin(1)	6		Prostate(6;0.014)|Breast(118;0.0982)		GBM - Glioblastoma multiforme(99;0.0116)		ATTGCTGAGGGAGATTTGTTC	0.498													15	26	---	---	---	---	PASS
SCEL	8796	broad.mit.edu	37	13	78202076	78202076	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:78202076C>T	uc001vki.2	+						SCEL_uc001vkj.2_Intron|SCEL_uc010thx.1_Intron	NM_144777	NP_659001	O95171	SCEL_HUMAN	sciellin isoform 1						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)		ATATTTTTTTCCTTAGAGACC	0.244													3	7	---	---	---	---	PASS
SLITRK5	26050	broad.mit.edu	37	13	88328487	88328487	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:88328487G>A	uc001vln.2	+	2	1063	c.844G>A	c.(844-846)GAA>AAA	p.E282K	SLITRK5_uc010tic.1_Missense_Mutation_p.E41K	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	282	LRRCT 1.|Extracellular (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					ATCCAAGCAGGAACTTTGCCC	0.542													19	39	---	---	---	---	PASS
SLITRK5	26050	broad.mit.edu	37	13	88328520	88328520	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:88328520G>A	uc001vln.2	+	2	1096	c.877G>A	c.(877-879)GAG>AAG	p.E293K	SLITRK5_uc010tic.1_Missense_Mutation_p.E52K	NM_015567	NP_056382	O94991	SLIK5_HUMAN	SLIT and NTRK-like family, member 5 precursor	293	Extracellular (Potential).					integral to membrane				ovary(2)|pancreas(2)|central_nervous_system(1)	5	all_neural(89;0.101)|Medulloblastoma(90;0.163)					TTCTGACTACGAGATGAGGCC	0.537													23	36	---	---	---	---	PASS
GPC5	2262	broad.mit.edu	37	13	92345891	92345891	+	Missense_Mutation	SNP	C	T	T	rs141328977		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:92345891C>T	uc010tif.1	+	3	1142	c.776C>T	c.(775-777)CCG>CTG	p.P259L		NM_004466	NP_004457	P78333	GPC5_HUMAN	glypican 5 precursor	259						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)				CAATACTGCCCGCACTGCCAA	0.552													20	25	---	---	---	---	PASS
DCT	1638	broad.mit.edu	37	13	95121299	95121299	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:95121299C>T	uc001vlv.3	-	2	723	c.296G>A	c.(295-297)GGA>GAA	p.G99E	DCT_uc010afh.2_Missense_Mutation_p.G99E	NM_001922	NP_001913	P40126	TYRP2_HUMAN	dopachrome tautomerase isoform 1	99	Lumenal, melanosome (Potential).				epidermis development|melanin biosynthetic process from tyrosine	cytosol|integral to membrane|melanosome membrane|microsome	copper ion binding|dopachrome isomerase activity|oxidoreductase activity			ovary(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)|pancreas(1)	5	all_neural(89;0.0684)|Medulloblastoma(90;0.163)	all_cancers(2;3.71e-42)|all_epithelial(2;3.76e-31)|all_lung(2;5.16e-14)|Lung NSC(4;1.33e-13)|Breast(118;0.0013)|Hepatocellular(115;0.00886)|Renal(2;0.00988)		COAD - Colon adenocarcinoma(199;7.07e-05)|GBM - Glioblastoma multiforme(99;0.000472)		GGCAAAGTTTCCTAGTTCACA	0.438													31	63	---	---	---	---	PASS
CLDN10	9071	broad.mit.edu	37	13	96230168	96230168	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:96230168G>A	uc001vmh.2	+	5	648	c.587G>A	c.(586-588)GGG>GAG	p.G196E	CLDN10_uc001vmg.2_Missense_Mutation_p.G194E|CLDN10_uc010tii.1_Missense_Mutation_p.G175E|DZIP1_uc010afn.2_Intron	NM_006984	NP_008915	P78369	CLD10_HUMAN	claudin 10 isoform b	196	Cytoplasmic (Potential).				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)			ACATACAACGGGGCCACATCT	0.378													14	20	---	---	---	---	PASS
DZIP1	22873	broad.mit.edu	37	13	96270231	96270231	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:96270231G>A	uc001vmk.2	-						DZIP1_uc001vml.2_Intron	NM_198968	NP_945319	Q86YF9	DZIP1_HUMAN	DAZ interacting protein 1 isoform 2						germ cell development|multicellular organismal development|spermatogenesis	cytoplasm|nucleus	nucleic acid binding|protein binding|zinc ion binding			ovary(2)	2	all_neural(89;0.0878)|Breast(111;0.148)|Medulloblastoma(90;0.163)		BRCA - Breast invasive adenocarcinoma(86;0.141)			gccaagtctggggaacaaacc	0.000													44	76	---	---	---	---	PASS
UGGT2	55757	broad.mit.edu	37	13	96555192	96555192	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:96555192C>A	uc001vmt.2	-	21	2588	c.2418G>T	c.(2416-2418)TTG>TTT	p.L806F		NM_020121	NP_064506	Q9NYU1	UGGG2_HUMAN	UDP-glucose ceramide glucosyltransferase-like 2	806					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						GAAAGCTTCTCAAAAACATGT	0.338													20	33	---	---	---	---	PASS
FARP1	10160	broad.mit.edu	37	13	99037085	99037085	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:99037085C>T	uc001vnj.2	+	7	934	c.598C>T	c.(598-600)CAC>TAC	p.H200Y	FARP1_uc001vnh.2_Missense_Mutation_p.H200Y	NM_005766	NP_005757	Q9Y4F1	FARP1_HUMAN	FERM, RhoGEF, and pleckstrin domain protein 1	200	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)			CGTGGAATTTCACCATAACCA	0.463													15	36	---	---	---	---	PASS
STK24	8428	broad.mit.edu	37	13	99108730	99108730	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:99108730G>A	uc001vnm.1	-						STK24_uc001vnn.1_Intron|STK24_uc010tim.1_Intron	NM_003576	NP_003567	Q9Y6E0	STK24_HUMAN	serine/threonine kinase 24 isoform a						cellular component disassembly involved in apoptosis|signal transduction	cytosol|nucleoplasm	ATP binding|protein binding|protein serine/threonine kinase activity			ovary(1)|lung(1)	2	all_neural(89;0.0982)|Medulloblastoma(90;0.163)|Lung SC(71;0.184)		BRCA - Breast invasive adenocarcinoma(86;0.233)			ACACAGAGCGGCTTCCCAGCA	0.582													6	9	---	---	---	---	PASS
SLC15A1	6564	broad.mit.edu	37	13	99378529	99378529	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:99378529G>A	uc001vno.2	-						SLC15A1_uc001vnp.1_Intron	NM_005073	NP_005064	P46059	S15A1_HUMAN	solute carrier family 15 (oligopeptide						digestion|protein transport	integral to plasma membrane|membrane fraction	peptide:hydrogen symporter activity			ovary(1)	1	all_neural(89;0.101)|Medulloblastoma(90;0.18)|Lung SC(71;0.184)				Cefadroxil(DB01140)|Ceftibuten(DB01415)|Cyclacillin(DB01000)	CTTTTGCAGAGGGCAGGTGGA	0.502													6	24	---	---	---	---	PASS
MIR623	693208	broad.mit.edu	37	13	100008450	100008450	+	RNA	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:100008450C>A	hsa-mir-623|MI0003637	+			c.66C>A			UBAC2_uc001voa.3_Intron|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																	0						TGGAGCTTCCCGATGTACTCT	0.522													6	197	---	---	---	---	PASS
CLYBL	171425	broad.mit.edu	37	13	100515265	100515265	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:100515265C>T	uc001vok.2	+	4	473	c.459C>T	c.(457-459)TTC>TTT	p.F153F	CLYBL_uc010tix.1_Silent_p.F153F|CLYBL_uc010tiy.1_Intron	NM_206808	NP_996531	Q8N0X4	CLYBL_HUMAN	citrate lyase beta like precursor	153					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)					AATTTTCATTCCACTTAAAAG	0.353													6	30	---	---	---	---	PASS
FAM155A	728215	broad.mit.edu	37	13	107823060	107823060	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:107823060G>A	uc001vql.2	-	3	1678	c.1162C>T	c.(1162-1164)CCA>TCA	p.P388S		NM_001080396	NP_001073865	B1AL88	F155A_HUMAN	family with sequence similarity 155, member A	388						integral to membrane	binding			skin(1)	1						CCTTTGGATGGGTTATTTGAT	0.458													3	18	---	---	---	---	PASS
LIG4	3981	broad.mit.edu	37	13	108862306	108862306	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:108862306G>A	uc001vqn.2	-	2	1584	c.1311C>T	c.(1309-1311)ATC>ATT	p.I437I	LIG4_uc001vqo.2_Silent_p.I437I|LIG4_uc010agg.1_Silent_p.I370I|LIG4_uc010agf.2_Silent_p.I437I|LIG4_uc001vqp.2_Silent_p.I437I	NM_002312	NP_002303	P49917	DNLI4_HUMAN	DNA ligase IV	437					cell cycle|cell division|cell proliferation|central nervous system development|chromosome organization|DNA ligation involved in DNA recombination|DNA ligation involved in DNA repair|DNA replication|double-strand break repair via nonhomologous end joining|in utero embryonic development|initiation of viral infection|isotype switching|negative regulation of neuron apoptosis|neuron apoptosis|nucleotide-excision repair, DNA gap filling|positive regulation of fibroblast proliferation|positive regulation of neurogenesis|pro-B cell differentiation|provirus integration|response to gamma radiation|response to X-ray|single strand break repair|somatic stem cell maintenance|T cell differentiation in thymus|T cell receptor V(D)J recombination	condensed chromosome|cytoplasm|DNA ligase IV complex|DNA-dependent protein kinase-DNA ligase 4 complex|focal adhesion|nucleoplasm	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding|protein C-terminus binding				0	all_lung(23;0.000238)|all_neural(89;0.00256)|Lung NSC(43;0.0056)|Medulloblastoma(90;0.00596)|Lung SC(71;0.104)					CTGGCTTGTAGATGGATAGAG	0.343								NHEJ					34	108	---	---	---	---	PASS
MYO16	23026	broad.mit.edu	37	13	109672195	109672195	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:109672195G>A	uc001vqt.1	+	23	2792	c.2666G>A	c.(2665-2667)GGG>GAG	p.G889E	MYO16_uc010agk.1_Missense_Mutation_p.G911E|MYO16_uc001vqu.1_Missense_Mutation_p.G689E|MYO16_uc010tjh.1_Missense_Mutation_p.G401E	NM_015011	NP_055826	Q9Y6X6	MYO16_HUMAN	myosin heavy chain Myr 8	889	Myosin head-like 2.				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)			ATGAAGGATGGGAATGGGAAT	0.443													23	34	---	---	---	---	PASS
COL4A1	1282	broad.mit.edu	37	13	110826824	110826824	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:110826824C>T	uc001vqw.3	-	39	3497	c.3375G>A	c.(3373-3375)TTG>TTA	p.L1125L	COL4A1_uc010agl.2_Intron	NM_001845	NP_001836	P02462	CO4A1_HUMAN	alpha 1 type IV collagen preproprotein	1125	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)			GGATGCCATCCAATCCTGGGA	0.517													9	13	---	---	---	---	PASS
COL4A2	1284	broad.mit.edu	37	13	111090919	111090919	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:111090919G>A	uc001vqx.2	+							NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein						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)			TTGGCTGGAGGGGCCGCCCCT	0.607													11	30	---	---	---	---	PASS
COL4A2	1284	broad.mit.edu	37	13	111090920	111090920	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:111090920G>A	uc001vqx.2	+							NM_001846	NP_001837	P08572	CO4A2_HUMAN	alpha 2 type IV collagen preproprotein						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)			TGGCTGGAGGGGCCGCCCCTG	0.607													10	28	---	---	---	---	PASS
TUBGCP3	10426	broad.mit.edu	37	13	113212713	113212713	+	Silent	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:113212713A>G	uc001vse.1	-	5	532	c.345T>C	c.(343-345)GCT>GCC	p.A115A	TUBGCP3_uc010tjq.1_Intron|TUBGCP3_uc001vsf.2_Silent_p.A115A|TUBGCP3_uc001vsg.1_Silent_p.A115A	NM_006322	NP_006313	Q96CW5	GCP3_HUMAN	tubulin, gamma complex associated protein 3	115					G2/M transition of mitotic cell cycle|microtubule nucleation|single fertilization	centriole|cytosol|polar microtubule	gamma-tubulin binding|structural constituent of cytoskeleton			central_nervous_system(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)					CAAATAACGTAGCATAGCTAG	0.453													5	20	---	---	---	---	PASS
ATP11A	23250	broad.mit.edu	37	13	113514664	113514664	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:113514664C>T	uc001vsi.3	+	24	2879	c.2791C>T	c.(2791-2793)CTG>TTG	p.L931L	ATP11A_uc001vsj.3_Silent_p.L931L|ATP11A_uc001vsm.1_Silent_p.L807L|ATP11A_uc010ago.2_Intron	NM_015205	NP_056020	P98196	AT11A_HUMAN	ATPase, class VI, type 11A isoform a	931	Helical; (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			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)				CCCCATCCTCCTGTACAGCCT	0.537													8	39	---	---	---	---	PASS
ATP11A	23250	broad.mit.edu	37	13	113536372	113536372	+	3'UTR	SNP	C	T	T	rs142416018		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:113536372C>T	uc001vsi.3	+	30					ATP11A_uc001vsj.3_Silent_p.L1190L|ATP11A_uc010ago.2_RNA	NM_015205	NP_056020	P98196	AT11A_HUMAN	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)				TGGGAATGCTCGTGTGATGGA	0.632													16	67	---	---	---	---	PASS
MCF2L	23263	broad.mit.edu	37	13	113678954	113678954	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:113678954C>T	uc001vsu.2	+						MCF2L_uc001vsq.2_Intron|MCF2L_uc010tjr.1_Intron|MCF2L_uc001vsr.2_Intron|MCF2L_uc001vss.3_Intron|MCF2L_uc010tjs.1_Intron	NM_001112732	NP_001106203	O15068	MCF2L_HUMAN	MCF.2 cell line derived transforming						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|plasma membrane	Rho guanyl-nucleotide exchange factor activity			ovary(1)|kidney(1)	2	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;0.118)|all_lung(25;0.0368)|all_epithelial(44;0.0396)|Lung NSC(25;0.129)|Breast(118;0.188)				TGGTCTCTCCCCAGGTGGGCG	0.592													16	15	---	---	---	---	PASS
MCF2L	23263	broad.mit.edu	37	13	113678955	113678955	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:113678955C>T	uc001vsu.2	+						MCF2L_uc001vsq.2_Intron|MCF2L_uc010tjr.1_Intron|MCF2L_uc001vsr.2_Intron|MCF2L_uc001vss.3_Intron|MCF2L_uc010tjs.1_Intron	NM_001112732	NP_001106203	O15068	MCF2L_HUMAN	MCF.2 cell line derived transforming						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|plasma membrane	Rho guanyl-nucleotide exchange factor activity			ovary(1)|kidney(1)	2	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;0.118)|all_lung(25;0.0368)|all_epithelial(44;0.0396)|Lung NSC(25;0.129)|Breast(118;0.188)				GGTCTCTCCCCAGGTGGGCGG	0.592													16	17	---	---	---	---	PASS
F10	2159	broad.mit.edu	37	13	113777207	113777207	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:113777207C>T	uc001vsx.2	+	1	95	c.38C>T	c.(37-39)TCC>TTC	p.S13F	F10_uc010agq.1_RNA|F10_uc001vsy.2_Missense_Mutation_p.S13F|F10_uc001vsz.2_Missense_Mutation_p.S13F	NM_000504	NP_000495	P00742	FA10_HUMAN	coagulation factor X preproprotein	13					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)	CTCAGTGCCTCCCTGGCTGGC	0.662													6	15	---	---	---	---	PASS
PCID2	55795	broad.mit.edu	37	13	113832535	113832535	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:113832535G>A	uc010tju.1	-	14	1258	c.1177C>T	c.(1177-1179)CCT>TCT	p.P393S	PCID2_uc001vtb.2_Missense_Mutation_p.P226S|PCID2_uc010tjv.1_Missense_Mutation_p.P393S|PCID2_uc010tjw.1_Missense_Mutation_p.P393S|PCID2_uc001vte.2_Missense_Mutation_p.P286S|PCID2_uc001vtd.2_Missense_Mutation_p.P286S|PCID2_uc001vtf.2_Missense_Mutation_p.P286S	NM_001127203	NP_001120675	Q5JVF3	PCID2_HUMAN	PCI domain containing 2	393					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)			GACAGGGGAGGAAATGGGTTC	0.542													10	46	---	---	---	---	PASS
DCUN1D2	55208	broad.mit.edu	37	13	114138238	114138238	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:114138238T>C	uc001vtr.1	-	2	176	c.137A>G	c.(136-138)CAA>CGA	p.Q46R	DCUN1D2_uc001vts.1_RNA|DCUN1D2_uc010agw.1_Intron	NM_001014283	NP_001014305	Q6PH85	DCNL2_HUMAN	DCN1, defective in cullin neddylation 1, domain	46											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)			GTCTGGGTTTTGGAAGAAGCT	0.557													33	79	---	---	---	---	PASS
RASA3	22821	broad.mit.edu	37	13	114817534	114817534	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:114817534G>A	uc001vui.2	-	3	401	c.270C>T	c.(268-270)TCC>TCT	p.S90S	RASA3_uc010tkk.1_Silent_p.S58S|RASA3_uc001vuj.2_5'UTR|RASA3_uc010tkl.1_RNA	NM_007368	NP_031394	Q14644	RASA3_HUMAN	RAS p21 protein activator 3	90	C2 1.				intracellular signal transduction|negative regulation of Ras protein signal transduction	cytoplasm|intrinsic to internal side of plasma membrane	calcium-release channel activity|metal ion binding|Ras GTPase activator activity			lung(3)|skin(1)	4	Lung NSC(43;0.00814)|all_neural(89;0.0337)|Medulloblastoma(90;0.163)|Lung SC(71;0.218)	all_cancers(25;0.016)|all_epithelial(44;0.00577)|all_lung(25;0.0173)|Lung NSC(25;0.0634)|Breast(118;0.188)	BRCA - Breast invasive adenocarcinoma(86;0.128)			TACCTATGATGGAATCCCTCC	0.473													7	28	---	---	---	---	PASS
OR4Q3	441669	broad.mit.edu	37	14	20216115	20216115	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:20216115A>T	uc010tkt.1	+	1	529	c.529A>T	c.(529-531)AAC>TAC	p.N177Y		NM_172194	NP_751944	Q8NH05	OR4Q3_HUMAN	olfactory receptor, family 4, subfamily Q,	177	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			breast(3)	3	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		TGAACTGGACAACTTCTACTG	0.507													8	56	---	---	---	---	PASS
OR4K5	79317	broad.mit.edu	37	14	20389490	20389490	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:20389490C>T	uc010tkw.1	+	1	725	c.725C>T	c.(724-726)TCC>TTC	p.S242F		NM_001005483	NP_001005483	Q8NGD3	OR4K5_HUMAN	olfactory receptor, family 4, subfamily K,	242	Helical; Name=6; (Potential).				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)		ACGCTGGCTTCCCATATTGCA	0.403													23	139	---	---	---	---	PASS
OR4K14	122740	broad.mit.edu	37	14	20483071	20483071	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:20483071G>A	uc010tky.1	-	1	282	c.282C>T	c.(280-282)TCC>TCT	p.S94S		NM_001004712	NP_001004712	Q8NGD5	OR4KE_HUMAN	olfactory receptor, family 4, subfamily K,	94	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(2)|large_intestine(1)	3	all_cancers(95;0.00108)		Epithelial(56;4.65e-07)|all cancers(55;2e-06)	GBM - Glioblastoma multiforme(265;0.00124)		ATCCTCCAAAGGAGATGAGTT	0.483													34	34	---	---	---	---	PASS
OR4N5	390437	broad.mit.edu	37	14	20612188	20612188	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:20612188C>T	uc010tla.1	+	1	294	c.294C>T	c.(292-294)ATC>ATT	p.I98I		NM_001004724	NP_001004724	Q8IXE1	OR4N5_HUMAN	olfactory receptor, family 4, subfamily N,	98	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1	all_cancers(95;0.00108)		Epithelial(56;7.58e-07)|all cancers(55;3.84e-06)	GBM - Glioblastoma multiforme(265;0.0143)		GAAGCTGCATCACTCAGCTCT	0.493													12	93	---	---	---	---	PASS
TEP1	7011	broad.mit.edu	37	14	20864797	20864797	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:20864797G>A	uc001vxe.2	-	10	1682	c.1642C>T	c.(1642-1644)CAG>TAG	p.Q548*	TEP1_uc010tlf.1_RNA|TEP1_uc010tlg.1_Nonsense_Mutation_p.Q440*	NM_007110	NP_009041	Q99973	TEP1_HUMAN	telomerase-associated protein 1	548	TROVE.				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)		TGGAGTCTCTGGAGAATGAGC	0.572													4	27	---	---	---	---	PASS
OSGEP	55644	broad.mit.edu	37	14	20916906	20916906	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:20916906G>A	uc001vxf.2	-	6	978	c.622C>T	c.(622-624)CTG>TTG	p.L208L		NM_017807	NP_060277	Q9NPF4	OSGEP_HUMAN	O-sialoglycoprotein endopeptidase	208					proteolysis|tRNA processing		metal ion binding|metalloendopeptidase activity|protein binding				0	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;1.09e-07)|all cancers(55;1.19e-06)	GBM - Glioblastoma multiforme(265;0.0231)|READ - Rectum adenocarcinoma(17;0.196)		ATGAAAGACAGGATCCCTGAG	0.438													7	33	---	---	---	---	PASS
TMEM55B	90809	broad.mit.edu	37	14	20927782	20927782	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:20927782C>T	uc001vxl.2	-						TMEM55B_uc001vxk.2_Intron	NM_144568	NP_653169	Q86T03	TM55B_HUMAN	transmembrane protein 55B isoform 2							integral to membrane|late endosome membrane|lysosomal membrane	hydrolase activity				0	all_cancers(95;0.00123)	all_lung(585;0.235)	Epithelial(56;1.09e-07)|all cancers(55;1.19e-06)	GBM - Glioblastoma multiforme(265;0.0224)|READ - Rectum adenocarcinoma(17;0.193)		ATACCCCTTCCTCACCAGAAA	0.498													18	24	---	---	---	---	PASS
OR6S1	341799	broad.mit.edu	37	14	21109437	21109437	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:21109437C>T	uc001vxv.1	-	1	414	c.414G>A	c.(412-414)ATG>ATA	p.M138I		NM_001001968	NP_001001968	Q8NH40	OR6S1_HUMAN	olfactory receptor, family 6, subfamily S,	138	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|skin(1)	2	all_cancers(95;0.00304)		Epithelial(56;1.23e-06)|all cancers(55;1.01e-05)	GBM - Glioblastoma multiforme(265;0.0135)		CAGCCCCACTCATGAGCAAGG	0.587													15	16	---	---	---	---	PASS
RNASE13	440163	broad.mit.edu	37	14	21502423	21502423	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:21502423G>A	uc001vzj.2	-	2	163	c.25C>T	c.(25-27)CTT>TTT	p.L9F	NDRG2_uc010tll.1_Intron	NM_001012264	NP_001012264	Q5GAN3	RNS13_HUMAN	ribonuclease, RNase A family, 13 precursor	9						extracellular region	nucleic acid binding|pancreatic ribonuclease activity			upper_aerodigestive_tract(1)	1	all_cancers(95;0.000759)		OV - Ovarian serous cystadenocarcinoma(11;6.85e-11)|Epithelial(56;9.49e-09)|all cancers(55;3.84e-08)	GBM - Glioblastoma multiforme(265;0.019)		TGGAGGAAAAGGAGCCGGGTC	0.552													14	24	---	---	---	---	PASS
OR5AU1	390445	broad.mit.edu	37	14	21623338	21623338	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:21623338G>A	uc010tlp.1	-	1	847	c.847C>T	c.(847-849)CAG>TAG	p.Q283*		NM_001004731	NP_001004731	Q8NGC0	O5AU1_HUMAN	olfactory receptor, family 5, subfamily AU,	283	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)	1	all_cancers(95;0.00238)		Epithelial(56;6.88e-07)|all cancers(55;6.02e-06)	GBM - Glioblastoma multiforme(265;0.0192)		AACCTGCCCTGGGCCGAGCTC	0.493													14	10	---	---	---	---	PASS
SUPT16H	11198	broad.mit.edu	37	14	21831642	21831642	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:21831642G>A	uc001wao.2	-	11	1593	c.1254C>T	c.(1252-1254)CTC>CTT	p.L418L		NM_007192	NP_009123	Q9Y5B9	SP16H_HUMAN	chromatin-specific transcription elongation	418					DNA repair|DNA replication|nucleosome disassembly|positive regulation of transcription elongation, DNA-dependent|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|viral reproduction	chromosome|nucleoplasm	GTP binding				0	all_cancers(95;0.00115)		Epithelial(56;1.62e-06)|all cancers(55;1.49e-05)	GBM - Glioblastoma multiforme(265;0.0159)		TCACAGAAGTGAGAACAGTAG	0.353													11	22	---	---	---	---	PASS
CHD8	57680	broad.mit.edu	37	14	21881137	21881137	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:21881137G>A	uc001was.1	-	10	1418	c.1324C>T	c.(1324-1326)CCA>TCA	p.P442S	CHD8_uc001war.1_Missense_Mutation_p.P338S|CHD8_uc001wav.1_5'Flank	NM_020920	NP_065971	Q9HCK8	CHD8_HUMAN	chromodomain helicase DNA binding protein 8	721					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)		ACGTAGTCTGGATTAAAGGGC	0.368													13	10	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	14	22265981	22265981	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:22265981G>A	uc010tmf.1	+						uc010air.1_Silent_p.K88K					SubName: Full=Putative uncharacterized protein ENSP00000374943;																		AATTTATAAAGAGTAAATTCT	0.473													4	61	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	14	22671124	22671124	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:22671124C>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_Intron|uc010ajk.1_Intron|uc001wdg.1_Intron|uc010ajl.1_Intron|uc001wdj.2_Silent_p.Y63Y|uc010ajm.1_RNA					SubName: Full=Alpha-chain C region; Flags: Fragment;																		GTCCAGAGTACGTGATTCATG	0.483													12	43	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	14	22690104	22690104	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:22690104G>A	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_Intron|uc010ajk.1_Intron|uc001wdg.1_Intron|uc010ajl.1_Intron|uc001wdj.2_Intron|uc010ajo.1_5'UTR|uc010ajn.1_Silent_p.Q21Q					SubName: Full=Alpha-chain C region; Flags: Fragment;																		GTGGTCAACAGCTGAATCAGA	0.413													10	45	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	14	22931973	22931973	+	Intron	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:22931973A>T	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|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|uc001wdx.3_Silent_p.T5T|uc010ajs.1_Silent_p.T5T|uc001wdz.3_Silent_p.T5T|uc010tms.1_Silent_p.T5T|uc010ajt.2_Silent_p.T30T|uc010aju.1_Silent_p.T30T|uc001wea.3_Silent_p.T30T					SubName: Full=Alpha-chain C region; Flags: Fragment;																		AAAATGGAACAAATGTCGCTT	0.373													9	6	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	14	22957638	22957638	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:22957638C>T	uc001wbw.2	+						uc010aja.1_Intron|uc010tmk.1_Intron|uc001wco.2_Intron|uc010aje.1_Intron|uc001wcp.2_Intron|uc001wcr.1_Intron|uc001wcs.1_Intron|uc010ajf.1_Intron|uc001wcx.3_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|uc001wdv.3_Intron|uc001wec.2_Intron|uc001wee.3_Intron|uc010tmt.1_Intron|uc010ajv.1_Intron|uc001weg.2_Intron|uc001weh.1_Intron|uc001wei.2_Intron|uc001wej.2_5'UTR|uc001wek.2_5'Flank|uc001wel.2_5'Flank|uc001wem.3_5'Flank					SubName: Full=Alpha-chain C region; Flags: Fragment;																		TCAGTCATTCCAAGTAAGTGT	0.488													8	13	---	---	---	---	PASS
OXA1L	5018	broad.mit.edu	37	14	23235850	23235850	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:23235850C>T	uc001wgn.2	+	1	120	c.120C>T	c.(118-120)TTC>TTT	p.F40F	OXA1L_uc010tnc.1_Silent_p.F40F|OXA1L_uc001wgo.2_RNA|OXA1L_uc010akc.2_Silent_p.F40F|OXA1L_uc001wgp.2_5'Flank|OXA1L_uc001wgq.2_5'Flank	NM_005015	NP_005006	Q15070	OXA1L_HUMAN	oxidase (cytochrome c) assembly 1-like	Error:Variant_position_missing_in_Q15070_after_alignment					aerobic respiration|mitochondrial proton-transporting ATP synthase complex assembly|mitochondrial respiratory chain complex I assembly|negative regulation of ATPase activity|negative regulation of oxidoreductase activity|protein insertion into membrane|protein tetramerization	integral to mitochondrial membrane|mitochondrial respiratory chain|protein complex	protein homodimerization activity|ribosome binding			central_nervous_system(1)	1	all_cancers(95;8.44e-05)			GBM - Glioblastoma multiforme(265;0.0096)		AAAAGTGCTTCCTCTCGAGGG	0.547													13	85	---	---	---	---	PASS
PSMB5	5693	broad.mit.edu	37	14	23502794	23502794	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:23502794G>A	uc001wii.2	-	2	552	c.288C>T	c.(286-288)ATC>ATT	p.I96I	PSMB5_uc001wij.2_Silent_p.I96I|PSMB5_uc010tni.1_5'UTR	NM_002797	NP_002788	P28074	PSB5_HUMAN	proteasome beta 5 subunit isoform 1	96					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)	GGTATGGGTTGATCTCTATCA	0.542													4	23	---	---	---	---	PASS
CMTM5	116173	broad.mit.edu	37	14	23847659	23847659	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:23847659C>T	uc010akm.2	+	2	672	c.228C>T	c.(226-228)CTC>CTT	p.L76L	CMTM5_uc001wjs.2_Silent_p.L76L|CMTM5_uc001wjt.2_Silent_p.L76L|CMTM5_uc010akn.2_Intron|CMTM5_uc001wju.2_Intron|CMTM5_uc010ako.2_Intron	NM_138460	NP_612469	Q96DZ9	CKLF5_HUMAN	chemokine-like factor superfamily 5 isoform a	76	Helical; (Potential).|MARVEL.				chemotaxis	extracellular space|integral to membrane	cytokine activity				0	all_cancers(95;2e-05)			GBM - Glioblastoma multiforme(265;0.0064)|READ - Rectum adenocarcinoma(4;0.0276)|Colorectal(4;0.0382)		TCCTCTTCCTCTATGCCACCC	0.577													43	55	---	---	---	---	PASS
MYH6	4624	broad.mit.edu	37	14	23863333	23863333	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:23863333C>T	uc001wjv.2	-	21	2696	c.2629G>A	c.(2629-2631)GAG>AAG	p.E877K		NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	877	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)		ACCATCTTCTCCTCCAGCTCC	0.602													8	52	---	---	---	---	PASS
MYH6	4624	broad.mit.edu	37	14	23869531	23869531	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:23869531C>T	uc001wjv.2	-	14	1582	c.1515G>A	c.(1513-1515)GAG>GAA	p.E505E	MYH6_uc010akp.1_Silent_p.E505E	NM_002471	NP_002462	P13533	MYH6_HUMAN	myosin heavy chain 6	505	Myosin head-like.				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)		ACTCAATGCCCTCCTTCTTGT	0.542													46	26	---	---	---	---	PASS
LRRC16B	90668	broad.mit.edu	37	14	24528918	24528918	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:24528918G>A	uc001wlj.2	+	22	2002	c.1845G>A	c.(1843-1845)CTG>CTA	p.L615L	LRRC16B_uc001wlk.2_5'Flank	NM_138360	NP_612369	Q8ND23	LR16B_HUMAN	leucine rich repeat containing 16B	615										ovary(2)|breast(2)|pancreas(1)	5				GBM - Glioblastoma multiforme(265;0.019)		TGGGCTTCCTGGACATCGCAA	0.592													16	13	---	---	---	---	PASS
NYNRIN	57523	broad.mit.edu	37	14	24878047	24878047	+	Silent	SNP	C	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:24878047C>G	uc001wpf.3	+	4	1365	c.1047C>G	c.(1045-1047)GCC>GCG	p.A349A		NM_025081	NP_079357	Q9P2P1	NYNRI_HUMAN	hypothetical protein LOC57523	349					DNA integration	integral to membrane	DNA binding			ovary(2)|central_nervous_system(1)	3						CCTGGAAGGCCTGGACCCCGG	0.572													4	21	---	---	---	---	PASS
NYNRIN	57523	broad.mit.edu	37	14	24884157	24884157	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:24884157C>T	uc001wpf.3	+	9	3520	c.3202C>T	c.(3202-3204)CCC>TCC	p.P1068S		NM_025081	NP_079357	Q9P2P1	NYNRI_HUMAN	hypothetical protein LOC57523	1068					DNA integration	integral to membrane	DNA binding			ovary(2)|central_nervous_system(1)	3						CCTGGGCATCCCCTGGGATGG	0.627													27	21	---	---	---	---	PASS
KHNYN	23351	broad.mit.edu	37	14	24901146	24901146	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:24901146C>T	uc001wph.3	+	3	881	c.679C>T	c.(679-681)CCC>TCC	p.P227S	KHNYN_uc010tpc.1_Missense_Mutation_p.P268S|KHNYN_uc010alw.2_Missense_Mutation_p.P227S|CBLN3_uc001wpg.3_5'Flank	NM_015299	NP_056114	O15037	KHNYN_HUMAN	hypothetical protein LOC23351	227										ovary(2)|liver(1)	3						AGTGAGAGCTCCCCCTAGTGA	0.642											OREG0022627	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	8	40	---	---	---	---	PASS
KHNYN	23351	broad.mit.edu	37	14	24901919	24901919	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:24901919C>T	uc001wph.3	+						KHNYN_uc010tpc.1_Intron|KHNYN_uc010alw.2_Intron	NM_015299	NP_056114	O15037	KHNYN_HUMAN	hypothetical protein LOC23351											ovary(2)|liver(1)	3						CGACCCCCTCCCACTACAGGC	0.607											OREG0022627	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	24	19	---	---	---	---	PASS
KHNYN	23351	broad.mit.edu	37	14	24901920	24901920	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:24901920C>T	uc001wph.3	+						KHNYN_uc010tpc.1_Intron|KHNYN_uc010alw.2_Intron	NM_015299	NP_056114	O15037	KHNYN_HUMAN	hypothetical protein LOC23351											ovary(2)|liver(1)	3						GACCCCCTCCCACTACAGGCA	0.602											OREG0022627	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	24	19	---	---	---	---	PASS
CTSG	1511	broad.mit.edu	37	14	25043013	25043013	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:25043013C>T	uc001wpq.2	-	5	635	c.598G>A	c.(598-600)GAT>AAT	p.D200N		NM_001911	NP_001902	P08311	CATG_HUMAN	cathepsin G preproprotein	200	Peptidase S1.				immune response|proteolysis	cell surface|extracellular space|plasma membrane|stored secretory granule	heparin binding|serine-type endopeptidase activity			ovary(2)	2				GBM - Glioblastoma multiforme(265;0.0269)		CCTCCGGAATCCCCCTGTAGG	0.622													8	47	---	---	---	---	PASS
CTSG	1511	broad.mit.edu	37	14	25043646	25043646	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:25043646C>T	uc001wpq.2	-	4	436	c.399G>A	c.(397-399)CAG>CAA	p.Q133Q		NM_001911	NP_001902	P08311	CATG_HUMAN	cathepsin G preproprotein	133	Peptidase S1.				immune response|proteolysis	cell surface|extracellular space|plasma membrane|stored secretory granule	heparin binding|serine-type endopeptidase activity			ovary(2)	2				GBM - Glioblastoma multiforme(265;0.0269)		TCAGTCCCTCCTGGGCTCTAG	0.622													7	57	---	---	---	---	PASS
GZMB	3002	broad.mit.edu	37	14	25102253	25102253	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:25102253C>T	uc001wps.2	-	2	137	c.71G>A	c.(70-72)GGA>GAA	p.G24E	GZMB_uc010ama.2_Missense_Mutation_p.G12E|GZMB_uc010amb.2_RNA	NM_004131	NP_004122	P10144	GRAB_HUMAN	granzyme B precursor	24	Peptidase S1.				activation of pro-apoptotic gene products|cleavage of lamin|cytolysis|induction of apoptosis by intracellular signals	cytosol|immunological synapse|nucleus	protein binding|serine-type endopeptidase activity				0				GBM - Glioblastoma multiforme(265;0.028)		GGCCTCATGTCCCCCGATGAT	0.567													13	64	---	---	---	---	PASS
PRKD1	5587	broad.mit.edu	37	14	30103746	30103746	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:30103746G>A	uc001wqh.2	-	8	1373	c.1192C>T	c.(1192-1194)CCA>TCA	p.P398S		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	398					cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		CTTGTTGATGGACTTGAGAAG	0.378													48	43	---	---	---	---	PASS
PRKD1	5587	broad.mit.edu	37	14	30194832	30194832	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:30194832G>A	uc001wqh.2	-	2	494	c.313C>T	c.(313-315)CGC>TGC	p.R105C		NM_002742	NP_002733	Q15139	KPCD1_HUMAN	protein kinase D1	105					cell proliferation|intracellular signal transduction|sphingolipid metabolic process	cytosol|integral to plasma membrane	ATP binding|metal ion binding|protein binding|protein kinase C activity			lung(3)|large_intestine(2)|ovary(2)|skin(1)	8	Hepatocellular(127;0.0604)		LUAD - Lung adenocarcinoma(48;0.00527)|Lung(238;0.0252)	GBM - Glioblastoma multiforme(265;0.00888)		GGGTCATGGCGAAAAAGCAGG	0.413													5	52	---	---	---	---	PASS
COCH	1690	broad.mit.edu	37	14	31354713	31354713	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:31354713G>A	uc001wqr.2	+	10	927	c.847G>A	c.(847-849)GAG>AAG	p.E283K	COCH_uc001wqp.2_Missense_Mutation_p.E283K|COCH_uc001wqq.3_Missense_Mutation_p.E283K|uc001wqs.2_RNA|COCH_uc001wqt.1_Missense_Mutation_p.E134K	NM_004086	NP_004077	O43405	COCH_HUMAN	cochlin precursor	283	VWFA 1.				sensory perception of sound	proteinaceous extracellular matrix				pancreas(1)|central_nervous_system(1)|skin(1)	3	Hepatocellular(127;0.0877)|Breast(36;0.148)		LUAD - Lung adenocarcinoma(48;0.00192)|Lung(238;0.0119)|BRCA - Breast invasive adenocarcinoma(188;0.0805)	GBM - Glioblastoma multiforme(265;0.00645)		TGATGACATCGAGGAAGCAGG	0.468													33	36	---	---	---	---	PASS
HECTD1	25831	broad.mit.edu	37	14	31604320	31604320	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:31604320G>A	uc001wrc.1	-	22	3825	c.3336C>T	c.(3334-3336)GGC>GGT	p.G1112G	HECTD1_uc001wrd.1_Silent_p.G627G	NM_015382	NP_056197	Q9ULT8	HECD1_HUMAN	HECT domain containing 1	1112					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)		CTTCTAAGCGGCCATAAGGTA	0.383													30	29	---	---	---	---	PASS
BAZ1A	11177	broad.mit.edu	37	14	35228004	35228004	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:35228004C>T	uc001wsk.2	-	25	4860	c.4292G>A	c.(4291-4293)GGA>GAA	p.G1431E	BAZ1A_uc001wsl.2_Missense_Mutation_p.G1399E	NM_013448	NP_038476	Q9NRL2	BAZ1A_HUMAN	bromodomain adjacent to zinc finger domain, 1A	1431					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)		TTCATGAACTCCTCCCTGTCG	0.398													8	50	---	---	---	---	PASS
BAZ1A	11177	broad.mit.edu	37	14	35228005	35228005	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:35228005C>T	uc001wsk.2	-	25	4859	c.4291G>A	c.(4291-4293)GGA>AGA	p.G1431R	BAZ1A_uc001wsl.2_Missense_Mutation_p.G1399R	NM_013448	NP_038476	Q9NRL2	BAZ1A_HUMAN	bromodomain adjacent to zinc finger domain, 1A	1431					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)		TCATGAACTCCTCCCTGTCGG	0.398													7	50	---	---	---	---	PASS
SRP54	6729	broad.mit.edu	37	14	35497287	35497287	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:35497287C>T	uc001wso.2	+						SRP54_uc010tpp.1_Intron|SRP54_uc010tpq.1_Intron	NM_003136	NP_003127	P61011	SRP54_HUMAN	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)		TTTTTTTTTCCCCTCAGGTGG	0.363													17	39	---	---	---	---	PASS
KIAA0391	9692	broad.mit.edu	37	14	35592857	35592857	+	Nonsense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:35592857G>T	uc001wsy.1	+	2	766	c.406G>T	c.(406-408)GGA>TGA	p.G136*	KIAA0391_uc010tps.1_Nonsense_Mutation_p.G41*|KIAA0391_uc001wsz.1_Nonsense_Mutation_p.G136*|KIAA0391_uc001wta.2_RNA|KIAA0391_uc001wtb.1_Nonsense_Mutation_p.G136*|KIAA0391_uc001wtc.1_Intron|PPP2R3C_uc001wss.2_5'Flank|PPP2R3C_uc001wst.2_5'Flank|PPP2R3C_uc010tpr.1_5'Flank|PPP2R3C_uc001wsu.2_5'Flank|PPP2R3C_uc010amn.1_5'Flank|PPP2R3C_uc001wsw.2_5'Flank|PPP2R3C_uc001wsx.1_5'Flank	NM_014672	NP_055487	O15091	MRRP3_HUMAN	mitochondrial RNase P protein 3 precursor	136					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)		AGAAAACACCGGAAAGACCAG	0.433													4	57	---	---	---	---	PASS
NFKBIA	4792	broad.mit.edu	37	14	35871278	35871278	+	Intron	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:35871278G>T	uc001wtf.3	-						NFKBIA_uc001wte.3_Intron|NFKBIA_uc001wtg.3_Intron|NFKBIA_uc010amo.2_Intron	NM_020529	NP_065390	P25963	IKBA_HUMAN	nuclear factor of kappa light polypeptide gene						anti-apoptosis|apoptosis|cellular response to cold|cytoplasmic sequestering of NF-kappaB|innate immune response|interspecies interaction between organisms|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation of DNA binding|negative regulation of lipid storage|negative regulation of macrophage derived foam cell differentiation|negative regulation of NF-kappaB transcription factor activity|nerve growth factor receptor signaling pathway|positive regulation of cellular protein metabolic process|positive regulation of cholesterol efflux|positive regulation of NF-kappaB transcription factor activity|positive regulation of transcription from RNA polymerase II promoter|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|I-kappaB/NF-kappaB complex|nucleus|plasma membrane	identical protein binding|NF-kappaB binding|nuclear localization sequence binding|ubiquitin protein ligase binding			breast(2)	2	Breast(36;0.0484)|Hepatocellular(127;0.158)		Lung(238;9.25e-06)|LUAD - Lung adenocarcinoma(48;1.53e-05)|Epithelial(34;0.00314)|all cancers(34;0.00891)	GBM - Glioblastoma multiforme(112;0.0222)		TGAAAACAAGGGGAAAAAAGA	0.502													6	88	---	---	---	---	PASS
MBIP	51562	broad.mit.edu	37	14	36780893	36780893	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:36780893G>A	uc001wtm.2	-	6	764	c.676C>T	c.(676-678)CCT>TCT	p.P226S	MBIP_uc001wto.2_Missense_Mutation_p.P226S|MBIP_uc010tpy.1_Missense_Mutation_p.P85S|MBIP_uc001wtn.2_Missense_Mutation_p.P226S	NM_016586	NP_057670	Q9NS73	MBIP1_HUMAN	MAP3K12 binding inhibitory protein 1 isoform 1	226	Interaction with MAP3K12.				histone H3 acetylation|inactivation of MAPK activity involved in osmosensory signaling pathway	Ada2/Gcn5/Ada3 transcription activator complex|cytoplasm|nucleolus	identical protein binding|protein kinase inhibitor activity				0	all_cancers(3;1.55e-52)|all_epithelial(1;2.69e-62)|Breast(36;0.0505)|Hepatocellular(127;0.158)|Esophageal squamous(585;0.164)		Lung(8;1.28e-07)|LUAD - Lung adenocarcinoma(9;3e-07)|Epithelial(34;0.0303)|all cancers(34;0.0781)	GBM - Glioblastoma multiforme(112;0.0191)		ATTCCTTCAGGTCTAGTCTGT	0.373													20	22	---	---	---	---	PASS
MIA2	117153	broad.mit.edu	37	14	39709774	39709774	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:39709774G>A	uc001wux.2	+	3	453	c.259G>A	c.(259-261)GAG>AAG	p.E87K	MIA2_uc010amy.1_Missense_Mutation_p.E18K	NM_054024	NP_473365	Q96PC5	MIA2_HUMAN	melanoma inhibitory activity 2	87	SH3.					extracellular region				ovary(1)|breast(1)	2	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.000565)|Lung(238;0.000711)	GBM - Glioblastoma multiforme(112;0.0216)		GAAAGGAAAGGAGTTTGGATA	0.363													9	34	---	---	---	---	PASS
CTAGE5	4253	broad.mit.edu	37	14	39815168	39815168	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:39815168C>T	uc001wvg.3	+	21	2228	c.1892C>T	c.(1891-1893)TCT>TTT	p.S631F	CTAGE5_uc010tqe.1_Missense_Mutation_p.S593F|CTAGE5_uc001wuz.3_Missense_Mutation_p.S619F|CTAGE5_uc001wuy.3_Missense_Mutation_p.S551F|CTAGE5_uc001wvb.3_Missense_Mutation_p.S559F|CTAGE5_uc001wvc.3_Missense_Mutation_p.S533F|CTAGE5_uc001wva.3_Missense_Mutation_p.S602F|CTAGE5_uc001wvh.3_Missense_Mutation_p.S588F|CTAGE5_uc001wvf.3_Missense_Mutation_p.S556F|CTAGE5_uc001wvi.3_Missense_Mutation_p.S636F|CTAGE5_uc010amz.2_Missense_Mutation_p.S247F|CTAGE5_uc001wvj.3_Missense_Mutation_p.S602F	NM_005930	NP_005921	O15320	CTGE5_HUMAN	CTAGE family, member 5 isoform 1	631	Pro-rich.						enzyme activator activity|protein binding				0	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.000565)|Lung(238;0.000711)	GBM - Glioblastoma multiforme(112;0.0475)		TGTTCTAATTCTGGTAGACTG	0.328													33	25	---	---	---	---	PASS
CTAGE5	4253	broad.mit.edu	37	14	39818103	39818103	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:39818103C>T	uc001wvg.3	+	23	2506	c.2170C>T	c.(2170-2172)CCA>TCA	p.P724S	CTAGE5_uc001wuz.3_Missense_Mutation_p.P712S|CTAGE5_uc001wuy.3_Missense_Mutation_p.P644S|CTAGE5_uc001wvb.3_Missense_Mutation_p.P652S|CTAGE5_uc001wvc.3_Missense_Mutation_p.P626S|CTAGE5_uc001wva.3_Missense_Mutation_p.P695S|CTAGE5_uc001wvh.3_Missense_Mutation_p.P681S|CTAGE5_uc001wvf.3_Missense_Mutation_p.P649S|CTAGE5_uc001wvi.3_Missense_Mutation_p.P729S|CTAGE5_uc010amz.2_Missense_Mutation_p.P340S|CTAGE5_uc001wvj.3_Missense_Mutation_p.P695S	NM_005930	NP_005921	O15320	CTGE5_HUMAN	CTAGE family, member 5 isoform 1	724	Pro-rich.						enzyme activator activity|protein binding				0	Hepatocellular(127;0.213)		LUAD - Lung adenocarcinoma(48;0.000565)|Lung(238;0.000711)	GBM - Glioblastoma multiforme(112;0.0475)		CCCACCTCCTCCAGGAGCCAT	0.488													30	68	---	---	---	---	PASS
FSCB	84075	broad.mit.edu	37	14	44975146	44975146	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:44975146C>T	uc001wvn.2	-	1	1354	c.1045G>A	c.(1045-1047)GAA>AAA	p.E349K		NM_032135	NP_115511	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	349	Pro-rich.					cilium				lung(3)|breast(3)|ovary(2)|central_nervous_system(1)	9				GBM - Glioblastoma multiforme(112;0.128)		GGCAGAATTTCAGCCAGAAGC	0.512													59	62	---	---	---	---	PASS
FSCB	84075	broad.mit.edu	37	14	44975992	44975992	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:44975992C>T	uc001wvn.2	-	1	508	c.199G>A	c.(199-201)GAA>AAA	p.E67K		NM_032135	NP_115511	Q5H9T9	FSCB_HUMAN	fibrous sheath CABYR binding protein	67						cilium				lung(3)|breast(3)|ovary(2)|central_nervous_system(1)	9				GBM - Glioblastoma multiforme(112;0.128)		CTAGTCATTTCCTGTCCATGC	0.423													55	66	---	---	---	---	PASS
MDGA2	161357	broad.mit.edu	37	14	47324289	47324289	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:47324289C>T	uc001wwj.3	-	15	2810	c.2614G>A	c.(2614-2616)GGG>AGG	p.G872R	MDGA2_uc001wwh.3_Missense_Mutation_p.G74R|MDGA2_uc001wwi.3_Missense_Mutation_p.G643R	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	872	MAM.				spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						CCTTTATTCCCACTTGAAGAC	0.308													6	42	---	---	---	---	PASS
MDGA2	161357	broad.mit.edu	37	14	47504454	47504454	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:47504454C>A	uc001wwj.3	-	8	1568	c.1372G>T	c.(1372-1374)GGA>TGA	p.G458*	MDGA2_uc001wwi.3_Nonsense_Mutation_p.G229*|MDGA2_uc010ani.2_Nonsense_Mutation_p.G18*	NM_001113498	NP_001106970	Q7Z553	MDGA2_HUMAN	MAM domain containing 1 isoform 1	458	Ig-like 5.				spinal cord motor neuron differentiation	anchored to membrane|plasma membrane				ovary(4)|large_intestine(1)|pancreas(1)	6						ATTGTGTCTCCTTCTCTGGTG	0.393													33	23	---	---	---	---	PASS
C14orf104	55172	broad.mit.edu	37	14	50101289	50101289	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:50101289C>T	uc001wws.3	-	1	660	c.579G>A	c.(577-579)AAG>AAA	p.K193K	SDCCAG1_uc010anj.1_Intron|C14orf104_uc001wwt.3_Silent_p.K193K	NM_018139	NP_060609	Q9NVR5	KTU_HUMAN	kintoun isoform 1	193					axonemal dynein complex assembly|ciliary cell motility|flagellar cell motility	cytoplasm					0	all_epithelial(31;0.0021)|Breast(41;0.0124)					CTGGGGTCCCCTTATACTTGG	0.682									Kartagener_syndrome				7	41	---	---	---	---	PASS
SDCCAG1	9147	broad.mit.edu	37	14	50272849	50272849	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:50272849C>T	uc001wxc.2	-	19	1815	c.1747G>A	c.(1747-1749)GAA>AAA	p.E583K	SDCCAG1_uc010anj.1_Missense_Mutation_p.E583K|SDCCAG1_uc010tqi.1_Missense_Mutation_p.E562K|SDCCAG1_uc001wxe.2_Missense_Mutation_p.E541K|SDCCAG1_uc001wxd.1_5'UTR	NM_004713	NP_004704	O60524	NEMF_HUMAN	serologically defined colon cancer antigen 1	583						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)		GGGATGGGTTCTCCTAGAATA	0.453													18	18	---	---	---	---	PASS
CDKL1	8814	broad.mit.edu	37	14	50824773	50824773	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:50824773G>A	uc010anu.1	-	15	2195	c.2195C>T	c.(2194-2196)CCC>CTC	p.P732L	CDKL1_uc001wxz.2_Intron	NM_004196	NP_004187	Q00532	CDKL1_HUMAN	cyclin-dependent kinase-like 1	Error:Variant_position_missing_in_Q00532_after_alignment						cytoplasm|nucleus	ATP binding|cyclin-dependent protein kinase activity			ovary(1)|stomach(1)	2	all_epithelial(31;0.000746)|Breast(41;0.0102)					CTTCAGGAAGGGACCCCCTCC	0.532													14	16	---	---	---	---	PASS
FRMD6	122786	broad.mit.edu	37	14	52182080	52182080	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:52182080C>T	uc001wzd.2	+	10	1172	c.887C>T	c.(886-888)TCT>TTT	p.S296F	FRMD6_uc001wzb.2_Missense_Mutation_p.S288F|FRMD6_uc001wzc.2_Missense_Mutation_p.S288F|FRMD6_uc001wze.2_Missense_Mutation_p.S219F|FRMD6_uc001wzf.2_5'UTR|FRMD6_uc001wzg.2_5'Flank	NM_152330	NP_689543	Q96NE9	FRMD6_HUMAN	FERM domain containing 6	296	FERM.					cytoskeleton|mitochondrion|plasma membrane	binding			ovary(1)|breast(1)|central_nervous_system(1)	3	all_epithelial(31;0.0163)|Breast(41;0.089)					GGCTTGCCTTCTGCCCGGAAG	0.483													9	42	---	---	---	---	PASS
NID2	22795	broad.mit.edu	37	14	52534585	52534585	+	Silent	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:52534585G>T	uc001wzo.2	-	2	759	c.525C>A	c.(523-525)CCC>CCA	p.P175P	NID2_uc010tqs.1_Silent_p.P175P|NID2_uc010tqt.1_Silent_p.P175P|NID2_uc001wzp.2_Silent_p.P175P	NM_007361	NP_031387	Q14112	NID2_HUMAN	nidogen 2 precursor	175	NIDO.					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)					CCTCTCCCGAGGGCAGCGCCC	0.617													83	49	---	---	---	---	PASS
FERMT2	10979	broad.mit.edu	37	14	53341991	53341991	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:53341991G>A	uc001xad.2	-	8	1103	c.1048C>T	c.(1048-1050)CTT>TTT	p.L350F	FERMT2_uc001xac.2_Missense_Mutation_p.L350F|FERMT2_uc001xae.2_Missense_Mutation_p.L350F|FERMT2_uc001xaf.2_Missense_Mutation_p.L350F	NM_006832	NP_006823	Q96AC1	FERM2_HUMAN	fermitin family homolog 2 isoform 1	350	FERM.				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)					AGGTCTGAAAGGGCAGCATCA	0.358													9	61	---	---	---	---	PASS
SAMD4A	23034	broad.mit.edu	37	14	55218235	55218235	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:55218235C>T	uc001xbb.2	+	5	1154	c.1153C>T	c.(1153-1155)CTC>TTC	p.L385F	SAMD4A_uc001xbc.2_Missense_Mutation_p.L297F	NM_015589	NP_056404	Q9UPU9	SMAG1_HUMAN	sterile alpha motif domain containing 4 isoform	386	SAM.				positive regulation of translation	cell junction|cytoplasm|dendrite|synapse|synaptosome	translation repressor activity				0						AAGACAAAATCTCCTGAAGTC	0.348													4	48	---	---	---	---	PASS
WDHD1	11169	broad.mit.edu	37	14	55429227	55429227	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:55429227G>A	uc001xbm.1	-	21	2768	c.2690C>T	c.(2689-2691)TCA>TTA	p.S897L	WDHD1_uc010aom.1_Missense_Mutation_p.S414L|WDHD1_uc001xbn.1_Missense_Mutation_p.S774L	NM_007086	NP_009017	O75717	WDHD1_HUMAN	WD repeat and HMG-box DNA binding protein 1	897						cytoplasm|nucleoplasm	DNA binding			skin(1)	1						TGACTTAGCTGAAACATCAGA	0.313													20	22	---	---	---	---	PASS
C14orf101	54916	broad.mit.edu	37	14	57103235	57103235	+	Silent	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:57103235A>G	uc001xcm.2	+	15	1910	c.1788A>G	c.(1786-1788)ACA>ACG	p.T596T	C14orf101_uc001xcj.2_RNA|C14orf101_uc001xcn.2_RNA|C14orf101_uc010trf.1_Silent_p.T129T|C14orf101_uc001xco.2_Silent_p.T129T	NM_017799	NP_060269	Q9NX78	CN101_HUMAN	hypothetical protein LOC54916	596						integral to membrane				breast(1)|central_nervous_system(1)	2				OV - Ovarian serous cystadenocarcinoma(311;0.226)		GGATGAAAACACCGTTCTTCA	0.418													20	19	---	---	---	---	PASS
GPR135	64582	broad.mit.edu	37	14	59931115	59931115	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:59931115A>G	uc010apj.2	-	1	945	c.830T>C	c.(829-831)TTC>TCC	p.F277S	GPR135_uc001xed.2_RNA	NM_022571	NP_072093	Q8IZ08	GP135_HUMAN	G protein-coupled receptor 135	277	Helical; Name=7; (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity				0				OV - Ovarian serous cystadenocarcinoma(108;0.134)		CCCCACGCTGAAGGCCGCGCC	0.711													2	2	---	---	---	---	PASS
RTN1	6252	broad.mit.edu	37	14	60212645	60212645	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:60212645C>T	uc001xen.1	-	2	1005	c.796G>A	c.(796-798)GAT>AAT	p.D266N		NM_021136	NP_066959	Q16799	RTN1_HUMAN	reticulon 1 isoform A	266					neuron differentiation	integral to endoplasmic reticulum membrane	signal transducer activity			ovary(2)|central_nervous_system(2)	4				OV - Ovarian serous cystadenocarcinoma(108;0.0968)		TCAGAGAGATCATCTATGTAT	0.463													31	35	---	---	---	---	PASS
C14orf135	64430	broad.mit.edu	37	14	60581593	60581593	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:60581593T>G	uc001xer.3	+	2	685	c.163T>G	c.(163-165)TTA>GTA	p.L55V	C14orf135_uc001xeq.2_Missense_Mutation_p.L55V	NM_022495	NP_071940	Q63HM2	CN135_HUMAN	hepatitis C virus F protein-binding protein 2	289						integral to membrane				ovary(2)	2		Myeloproliferative disorder(585;0.163)		OV - Ovarian serous cystadenocarcinoma(108;0.127)		GTCAACCCACTTACGGTATTT	0.368													15	76	---	---	---	---	PASS
PRKCH	5583	broad.mit.edu	37	14	61917548	61917548	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:61917548C>T	uc001xfn.2	+						PRKCH_uc010tsa.1_Intron	NM_006255	NP_006246	P24723	KPCL_HUMAN	protein kinase C, eta						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)		CCCTTTATTTCCTTTTTTACA	0.423													18	23	---	---	---	---	PASS
KCNH5	27133	broad.mit.edu	37	14	63174668	63174668	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:63174668T>G	uc001xfx.2	-	11	2576	c.2525A>C	c.(2524-2526)GAG>GCG	p.E842A	KCNH5_uc001xfy.2_3'UTR	NM_139318	NP_647479	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H,	842	Cytoplasmic (Potential).				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)		CTTGGGGTCCTCAGACAATAG	0.433													34	30	---	---	---	---	PASS
KCNH5	27133	broad.mit.edu	37	14	63269105	63269105	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:63269105G>A	uc001xfx.2	-	9	1815	c.1764C>T	c.(1762-1764)TGC>TGT	p.C588C	KCNH5_uc001xfy.2_Silent_p.C588C|KCNH5_uc001xfz.1_Silent_p.C530C	NM_139318	NP_647479	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H,	588	cNMP.|Cytoplasmic (Potential).				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)		ACACCACAAAGCAGAGGGCAT	0.507													21	35	---	---	---	---	PASS
KCNH5	27133	broad.mit.edu	37	14	63269132	63269132	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:63269132A>C	uc001xfx.2	-	9	1788	c.1737T>G	c.(1735-1737)CAT>CAG	p.H579Q	KCNH5_uc001xfy.2_Missense_Mutation_p.H579Q|KCNH5_uc001xfz.1_Missense_Mutation_p.H521Q	NM_139318	NP_647479	Q8NCM2	KCNH5_HUMAN	potassium voltage-gated channel, subfamily H,	579	cNMP.|Cytoplasmic (Potential).				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)		TTTCTCCAGCATGGTAAATGA	0.517													18	28	---	---	---	---	PASS
GPHB5	122876	broad.mit.edu	37	14	63784447	63784447	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:63784447C>T	uc010apu.2	-	1	117	c.117G>A	c.(115-117)AGG>AGA	p.R39R	GPHB5_uc001xgc.2_Silent_p.R29R	NM_145171	NP_660154	Q86YW7	GPHB5_HUMAN	glycoprotein beta 5	39						extracellular region	hormone activity			breast(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.00372)|all cancers(60;0.0226)|BRCA - Breast invasive adenocarcinoma(234;0.0978)		AAGTAAACTCCCTCACGGCAC	0.617													15	18	---	---	---	---	PASS
SYNE2	23224	broad.mit.edu	37	14	64483250	64483250	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:64483250G>A	uc001xgm.2	+	33	5018	c.4788G>A	c.(4786-4788)CAG>CAA	p.Q1596Q	SYNE2_uc001xgl.2_Silent_p.Q1596Q	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	1596	Cytoplasmic (Potential).|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)		AGATAAACCAGGTCTGCAAAA	0.279													10	10	---	---	---	---	PASS
SYNE2	23224	broad.mit.edu	37	14	64540702	64540702	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:64540702C>T	uc001xgm.2	+	53	10944	c.10714C>T	c.(10714-10716)CAG>TAG	p.Q3572*	SYNE2_uc001xgl.2_Nonsense_Mutation_p.Q3572*|SYNE2_uc010apy.2_5'Flank|SYNE2_uc010apw.1_Nonsense_Mutation_p.Q278*|SYNE2_uc010apx.1_5'UTR	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	3572	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)		TCAGAAAGTTCAGAAAAATAA	0.303													67	63	---	---	---	---	PASS
SYNE2	23224	broad.mit.edu	37	14	64690055	64690055	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:64690055G>T	uc001xgm.2	+	112	20500	c.20270G>T	c.(20269-20271)CGG>CTG	p.R6757L	SYNE2_uc001xgl.2_Missense_Mutation_p.R6780L|SYNE2_uc010apy.2_Missense_Mutation_p.R3142L|SYNE2_uc001xgn.2_Missense_Mutation_p.R1719L|SYNE2_uc001xgo.2_RNA|SYNE2_uc010aqa.2_Missense_Mutation_p.R727L|SYNE2_uc001xgq.2_Missense_Mutation_p.R1136L|SYNE2_uc001xgr.2_Missense_Mutation_p.R540L|SYNE2_uc010tsi.1_Missense_Mutation_p.R414L|SYNE2_uc001xgs.2_Missense_Mutation_p.R428L|SYNE2_uc001xgt.2_Missense_Mutation_p.R302L	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	6757	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)		AAACAGTTACGGGAGCAAGTG	0.428													4	43	---	---	---	---	PASS
SYNE2	23224	broad.mit.edu	37	14	64691254	64691254	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:64691254C>T	uc001xgm.2	+	113	20619	c.20389C>T	c.(20389-20391)CCC>TCC	p.P6797S	SYNE2_uc001xgl.2_Missense_Mutation_p.P6820S|SYNE2_uc010apy.2_Missense_Mutation_p.P3182S|SYNE2_uc001xgn.2_Missense_Mutation_p.P1759S|SYNE2_uc001xgo.2_RNA|SYNE2_uc010aqa.2_Missense_Mutation_p.P767S|SYNE2_uc001xgq.2_Missense_Mutation_p.P1176S|SYNE2_uc001xgr.2_Missense_Mutation_p.P580S|SYNE2_uc010tsi.1_Missense_Mutation_p.P454S|SYNE2_uc001xgs.2_Missense_Mutation_p.P468S|SYNE2_uc001xgt.2_Missense_Mutation_p.P342S	NM_015180	NP_055995	Q8WXH0	SYNE2_HUMAN	spectrin repeat containing, nuclear envelope 2	6797	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)		CGTGCCAGCTCCCCGAGCAAA	0.532													9	41	---	---	---	---	PASS
MTHFD1	4522	broad.mit.edu	37	14	64898345	64898345	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:64898345C>T	uc001xhb.2	+	14	1794	c.1407C>T	c.(1405-1407)ACC>ACT	p.T469T	MTHFD1_uc010aqe.2_Silent_p.T505T|MTHFD1_uc010aqf.2_Silent_p.T525T	NM_005956	NP_005947	P11586	C1TC_HUMAN	methylenetetrahydrofolate dehydrogenase 1	469	Formyltetrahydrofolate synthetase.				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)	ATGAACTGACCCAGACAGACA	0.468													9	35	---	---	---	---	PASS
C14orf50	145376	broad.mit.edu	37	14	65054875	65054875	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:65054875C>T	uc001xhl.1	+	11	1040	c.944C>T	c.(943-945)CCA>CTA	p.P315L	C14orf50_uc001xhm.1_Missense_Mutation_p.P45L	NM_172365	NP_758953	Q96LQ0	CN050_HUMAN	hypothetical protein LOC145376	315										skin(1)	1				OV - Ovarian serous cystadenocarcinoma(108;0.00382)|all cancers(60;0.00427)|BRCA - Breast invasive adenocarcinoma(234;0.0488)		ATGCGTTCTCCAGTCATGTCT	0.438													16	120	---	---	---	---	PASS
PLEKHG3	26030	broad.mit.edu	37	14	65207903	65207903	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:65207903C>T	uc001xho.1	+	16	1937	c.1668C>T	c.(1666-1668)CCC>CCT	p.P556P	PLEKHG3_uc001xhn.1_Silent_p.P500P|PLEKHG3_uc001xhp.2_Silent_p.P677P|PLEKHG3_uc010aqh.1_Silent_p.P98P|PLEKHG3_uc001xhq.1_Silent_p.P61P	NM_015549	NP_056364	A1L390	PKHG3_HUMAN	pleckstrin homology domain containing, family G,	556					regulation of Rho protein signal transduction	intracellular	Rho guanyl-nucleotide exchange factor activity			skin(1)	1				all cancers(60;0.00802)|OV - Ovarian serous cystadenocarcinoma(108;0.0109)|BRCA - Breast invasive adenocarcinoma(234;0.0485)		GGATGGACCCCCCAGGTGACA	0.612													10	62	---	---	---	---	PASS
SPTB	6710	broad.mit.edu	37	14	65236401	65236401	+	Silent	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:65236401G>T	uc001xht.2	-	27	5898	c.5844C>A	c.(5842-5844)ATC>ATA	p.I1948I	SPTB_uc001xhr.2_Silent_p.I1948I|SPTB_uc001xhs.2_Silent_p.I1948I|SPTB_uc001xhu.2_Silent_p.I1948I|SPTB_uc010aqi.2_Silent_p.I609I	NM_000347	NP_000338	P11277	SPTB1_HUMAN	spectrin beta isoform b	1948	Spectrin 16.				actin filament capping|axon guidance	cell surface|cytosol|intrinsic to internal side of plasma membrane|protein complex|spectrin|spectrin-associated cytoskeleton	actin filament binding|structural constituent of cytoskeleton			ovary(7)|skin(2)|lung(1)|central_nervous_system(1)	11		all_lung(585;4.15e-09)		all cancers(60;4.33e-34)|OV - Ovarian serous cystadenocarcinoma(108;8.32e-20)|BRCA - Breast invasive adenocarcinoma(234;0.0628)		TCTCTGCATTGATGCCCTGGT	0.592													5	117	---	---	---	---	PASS
FUT8	2530	broad.mit.edu	37	14	66208891	66208891	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:66208891C>T	uc001xin.2	+	11	2688	c.1491C>T	c.(1489-1491)TAC>TAT	p.Y497Y	FUT8_uc001xio.2_Silent_p.Y497Y|FUT8_uc010tsp.1_Silent_p.Y334Y|FUT8_uc001xir.3_RNA|FUT8_uc001xip.2_Silent_p.Y497Y|FUT8_uc001xiq.2_Silent_p.Y368Y|FUT8_uc001xis.2_Silent_p.Y91Y	NM_178155	NP_835368	Q9BYC5	FUT8_HUMAN	fucosyltransferase 8 isoform a	497	Lumenal (Potential).				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)		ATGACATCTACTATTTTGGGG	0.418													40	35	---	---	---	---	PASS
FUT8	2530	broad.mit.edu	37	14	66209112	66209112	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:66209112C>T	uc001xin.2	+	11	2909	c.1712C>T	c.(1711-1713)CCT>CTT	p.P571L	FUT8_uc001xio.2_Missense_Mutation_p.P571L|FUT8_uc010tsp.1_Missense_Mutation_p.P408L|FUT8_uc001xir.3_RNA|FUT8_uc001xip.2_Missense_Mutation_p.P571L|FUT8_uc001xiq.2_Missense_Mutation_p.P442L|FUT8_uc001xis.2_Missense_Mutation_p.P165L	NM_178155	NP_835368	Q9BYC5	FUT8_HUMAN	fucosyltransferase 8 isoform a	571	Lumenal (Potential).				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)		CCCACATATCCTGAGGCTGAG	0.443													18	19	---	---	---	---	PASS
ZFYVE26	23503	broad.mit.edu	37	14	68221818	68221818	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:68221818C>T	uc001xka.2	-	37	7075	c.6936G>A	c.(6934-6936)AGG>AGA	p.R2312R	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkb.2_Silent_p.R158R	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	2312					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)		TGGTTTTCTTCCTTCCAGAGC	0.498													58	66	---	---	---	---	PASS
ZFYVE26	23503	broad.mit.edu	37	14	68221819	68221819	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:68221819C>T	uc001xka.2	-	37	7074	c.6935G>A	c.(6934-6936)AGG>AAG	p.R2312K	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkb.2_Missense_Mutation_p.R158K	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	2312					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)		GGTTTTCTTCCTTCCAGAGCT	0.498													56	66	---	---	---	---	PASS
ZFYVE26	23503	broad.mit.edu	37	14	68228265	68228265	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:68228265C>T	uc001xka.2	-	35	6545	c.6406G>A	c.(6406-6408)GAA>AAA	p.E2136K	ZFYVE26_uc010tsz.1_RNA|ZFYVE26_uc001xkb.2_5'UTR|ZFYVE26_uc001xkc.3_Missense_Mutation_p.E2136K	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	zinc finger, FYVE domain containing 26	2136					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)		AGGGTAGCTTCCAGTTCCCTC	0.478													10	10	---	---	---	---	PASS
ACTN1	87	broad.mit.edu	37	14	69360386	69360386	+	Nonsense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:69360386T>A	uc001xkl.2	-	9	1151	c.841A>T	c.(841-843)AAG>TAG	p.K281*	ACTN1_uc010ttb.1_Nonsense_Mutation_p.K216*|ACTN1_uc001xkm.2_Nonsense_Mutation_p.K281*|ACTN1_uc001xkn.2_Nonsense_Mutation_p.K281*|ACTN1_uc001xko.1_Nonsense_Mutation_p.K216*|ACTN1_uc010ttd.1_Nonsense_Mutation_p.K260*	NM_001102	NP_001093	P12814	ACTN1_HUMAN	actinin, alpha 1 isoform b	281	Spectrin 1.|Interaction with DDN.				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)		CTGGCCAGCTTCTCGTAGTCT	0.552													6	56	---	---	---	---	PASS
SLC8A3	6547	broad.mit.edu	37	14	70515755	70515755	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:70515755C>T	uc001xly.2	-	7	2890	c.2136G>A	c.(2134-2136)GGG>GGA	p.G712G	SLC8A3_uc001xlu.2_Silent_p.G69G|SLC8A3_uc001xlv.2_Silent_p.G83G|SLC8A3_uc001xlw.2_Silent_p.G709G|SLC8A3_uc001xlx.2_Silent_p.G710G|SLC8A3_uc001xlz.2_Silent_p.G706G|SLC8A3_uc010ara.2_RNA|SLC8A3_uc001xma.2_Silent_p.G69G	NM_183002	NP_892114	P57103	NAC3_HUMAN	solute carrier family 8 (sodium/calcium	712	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)		CATCCTCATCCCCTGCTGAAG	0.527													17	17	---	---	---	---	PASS
MAP3K9	4293	broad.mit.edu	37	14	71209074	71209074	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:71209074G>A	uc001xmm.2	-	6	1561	c.1561C>T	c.(1561-1563)CCT>TCT	p.P521S	MAP3K9_uc010ttk.1_Missense_Mutation_p.P258S|MAP3K9_uc001xmk.2_Missense_Mutation_p.P215S|MAP3K9_uc001xml.2_Missense_Mutation_p.P521S	NM_033141	NP_149132	P80192	M3K9_HUMAN	mitogen-activated protein kinase kinase kinase	521				KLKDGNRISLPSDFQHKFTVQASPT -> AQPVLPFPHGHS RCPGGTGSSWGGQ (in Ref. 4).	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)		TGACCAGAAGGGAGGCTGATG	0.602													18	29	---	---	---	---	PASS
PCNX	22990	broad.mit.edu	37	14	71542926	71542926	+	Silent	SNP	G	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:71542926G>C	uc001xmo.2	+	28	5573	c.5127G>C	c.(5125-5127)ACG>ACC	p.T1709T	PCNX_uc010are.1_Silent_p.T1598T|PCNX_uc010arf.1_Silent_p.T497T	NM_014982	NP_055797	Q96RV3	PCX1_HUMAN	pecanex-like 1	1709						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)		ATTATGTTACGACCTCGTCTA	0.358													15	26	---	---	---	---	PASS
SIPA1L1	26037	broad.mit.edu	37	14	72202099	72202099	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:72202099C>T	uc001xms.2	+	20	5525	c.5177C>T	c.(5176-5178)CCT>CTT	p.P1726L	SIPA1L1_uc001xmt.2_Missense_Mutation_p.P1705L|SIPA1L1_uc001xmu.2_Missense_Mutation_p.P1705L|SIPA1L1_uc001xmv.2_Missense_Mutation_p.P1726L|SIPA1L1_uc010ttm.1_Missense_Mutation_p.P1180L|SIPA1L1_uc001xmw.2_Missense_Mutation_p.P491L	NM_015556	NP_056371	O43166	SI1L1_HUMAN	signal-induced proliferation-associated 1 like	1726					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)		CAGATGAAGCCTTACAGCAGG	0.542													33	34	---	---	---	---	PASS
PAPLN	89932	broad.mit.edu	37	14	73726100	73726100	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:73726100C>T	uc010ttx.1	+	15	1995	c.1832C>T	c.(1831-1833)TCT>TTT	p.S611F	PAPLN_uc001xnw.3_Missense_Mutation_p.S584F|PAPLN_uc010arl.2_RNA|PAPLN_uc010ttw.1_RNA|PAPLN_uc010tty.1_Missense_Mutation_p.S611F|PAPLN_uc010arm.2_5'Flank	NM_173462	NP_775733	O95428	PPN_HUMAN	papilin	611						proteinaceous extracellular matrix	metalloendopeptidase activity|serine-type endopeptidase inhibitor activity|zinc ion binding			ovary(1)|central_nervous_system(1)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.00394)|OV - Ovarian serous cystadenocarcinoma(108;0.0468)		CCCGCTCCCTCTCTGCAGCAG	0.701													13	12	---	---	---	---	PASS
NUMB	8650	broad.mit.edu	37	14	73743958	73743958	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:73743958G>A	uc001xny.1	-	13	1604	c.1284C>T	c.(1282-1284)CTC>CTT	p.L428L	NUMB_uc010aro.1_Silent_p.L233L|NUMB_uc010arp.1_Silent_p.L222L|NUMB_uc010arq.1_Silent_p.L282L|NUMB_uc010arr.1_Silent_p.L271L|NUMB_uc001xoa.1_Silent_p.L380L|NUMB_uc001xnz.1_Silent_p.L417L|NUMB_uc001xob.1_Silent_p.L369L|NUMB_uc001xod.1_Silent_p.L380L|NUMB_uc001xoc.1_Silent_p.L428L|NUMB_uc010ars.1_Silent_p.L417L|NUMB_uc010ttz.1_Silent_p.L126L|NUMB_uc001xoe.2_RNA	NM_001005743	NP_001005743	P49757	NUMB_HUMAN	numb homolog isoform 1	428					axon guidance|lateral ventricle development|neuroblast division in subventricular zone|positive regulation of neurogenesis	integral to plasma membrane				ovary(2)|central_nervous_system(1)|skin(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.00471)|OV - Ovarian serous cystadenocarcinoma(108;0.161)		CGGCCTGGAAGAGACCTGGAG	0.567													10	11	---	---	---	---	PASS
ACOT4	122970	broad.mit.edu	37	14	74060560	74060560	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:74060560C>T	uc001xoo.2	+	2	866	c.612C>T	c.(610-612)TCC>TCT	p.S204S		NM_152331	NP_689544	Q8N9L9	ACOT4_HUMAN	acyl-CoA thioesterase 4	204					acyl-CoA metabolic process|dicarboxylic acid metabolic process|long-chain fatty acid metabolic process|saturated monocarboxylic acid metabolic process|short-chain fatty acid metabolic process|succinyl-CoA metabolic process|unsaturated monocarboxylic acid metabolic process|very long-chain fatty acid metabolic process	peroxisome	carboxylesterase activity|palmitoyl-CoA hydrolase activity				0				BRCA - Breast invasive adenocarcinoma(234;0.00331)		ACAACATATCCCTGGAGTACT	0.438													30	34	---	---	---	---	PASS
YLPM1	56252	broad.mit.edu	37	14	75276419	75276419	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:75276419C>T	uc001xqj.3	+	7	4982	c.4858C>T	c.(4858-4860)CCT>TCT	p.P1620S	YLPM1_uc001xql.3_RNA|YLPM1_uc001xqm.1_Missense_Mutation_p.P103S	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	1425					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)		CATTCCCCCTCCTGGCCCAGT	0.493													30	26	---	---	---	---	PASS
YLPM1	56252	broad.mit.edu	37	14	75282952	75282952	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:75282952T>C	uc001xqj.3	+	12	5673	c.5549T>C	c.(5548-5550)GTT>GCT	p.V1850A	YLPM1_uc001xql.3_RNA|YLPM1_uc001xqm.1_Missense_Mutation_p.V333A	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	1655					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)		AAGACACATGTTGCAAAACTT	0.363													12	9	---	---	---	---	PASS
YLPM1	56252	broad.mit.edu	37	14	75283756	75283756	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:75283756C>T	uc001xqj.3	+	14	5932	c.5808C>T	c.(5806-5808)GAC>GAT	p.D1936D	YLPM1_uc001xql.3_RNA|YLPM1_uc001xqm.1_Silent_p.D419D	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	1741					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)		CCATCAATGACAGAGTTAGGC	0.403													20	12	---	---	---	---	PASS
YLPM1	56252	broad.mit.edu	37	14	75302035	75302035	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:75302035G>A	uc001xqj.3	+	20	6486	c.6362G>A	c.(6361-6363)GGA>GAA	p.G2121E	YLPM1_uc001xql.3_RNA	NM_019589	NP_062535	P49750	YLPM1_HUMAN	YLP motif containing 1	1926					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)		TTTGTGGTCGGACAGACTGAT	0.438													46	49	---	---	---	---	PASS
PROX2	283571	broad.mit.edu	37	14	75321913	75321913	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:75321913C>T	uc001xqr.1	-	4	1701	c.1701G>A	c.(1699-1701)AAG>AAA	p.K567K	uc001xqp.1_5'Flank|PROX2_uc001xqq.1_Silent_p.K266K	NM_001080408	NP_001073877	Q3B8N5	PROX2_HUMAN	prospero homeobox 2	567	Prospero-like.				multicellular organismal development|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0			KIRC - Kidney renal clear cell carcinoma(43;0.238)	BRCA - Breast invasive adenocarcinoma(234;0.00652)		AAATGGGTTTCTTCCAGGAAG	0.453													6	26	---	---	---	---	PASS
NEK9	91754	broad.mit.edu	37	14	75580897	75580897	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:75580897C>T	uc001xrl.2	-						NEK9_uc001xrk.2_Intron	NM_033116	NP_149107	Q8TD19	NEK9_HUMAN	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)		ATGTTTAAGTCACACCTACCT	0.453													23	19	---	---	---	---	PASS
C14orf179	112752	broad.mit.edu	37	14	76488675	76488675	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:76488675C>T	uc010asm.1	+	3	187	c.153C>T	c.(151-153)TCC>TCT	p.S51S	C14orf179_uc001xsf.2_RNA|C14orf179_uc010asl.1_Silent_p.S51S|C14orf179_uc001xsg.2_Silent_p.S51S|C14orf179_uc010tve.1_RNA|C14orf179_uc001xse.2_Silent_p.S51S	NM_001102564	NP_001096034	Q96FT9	IFT43_HUMAN	hypothetical protein LOC112752 isoform 2	51					cilium morphogenesis|intraflagellar retrograde transport						0				BRCA - Breast invasive adenocarcinoma(234;0.0199)		TGTAGACTTCCTCTGCTAAAT	0.378													32	43	---	---	---	---	PASS
C14orf118	55668	broad.mit.edu	37	14	76644281	76644281	+	Intron	SNP	T	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:76644281T>G	uc001xsh.2	+						C14orf118_uc001xsi.2_Intron|C14orf118_uc001xsl.2_Intron	NM_017926	NP_060396	Q9NWQ4	CN118_HUMAN	hypothetical protein LOC55668 isoform 1											ovary(2)|skin(1)	3				BRCA - Breast invasive adenocarcinoma(234;0.0172)		TCAGGTAAGATCATTTTTCTT	0.259													20	16	---	---	---	---	PASS
ANGEL1	23357	broad.mit.edu	37	14	77269739	77269739	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:77269739C>T	uc001xsv.2	-	7	1706	c.1593G>A	c.(1591-1593)ATG>ATA	p.M531I	ANGEL1_uc010tvf.1_Intron	NM_015305	NP_056120	Q9UNK9	ANGE1_HUMAN	angel homolog 1	531										ovary(2)|central_nervous_system(1)|skin(1)	4			Kidney(204;0.164)	BRCA - Breast invasive adenocarcinoma(234;0.0285)		TCACTCCTTCCATAAGGACCA	0.473													9	38	---	---	---	---	PASS
STON2	85439	broad.mit.edu	37	14	81744523	81744523	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:81744523G>A	uc010tvu.1	-	4	1333	c.1132C>T	c.(1132-1134)CAC>TAC	p.H378Y	STON2_uc001xvk.1_Missense_Mutation_p.H378Y|STON2_uc010tvt.1_Missense_Mutation_p.H175Y	NM_033104	NP_149095	Q8WXE9	STON2_HUMAN	stonin 2	378					endocytosis|intracellular protein transport|regulation of endocytosis	clathrin adaptor complex|nucleolus	protein binding			skin(3)|pancreas(2)	5				BRCA - Breast invasive adenocarcinoma(234;0.0348)		GCATCAGAGTGTGACTGGGTT	0.448													25	51	---	---	---	---	PASS
EML5	161436	broad.mit.edu	37	14	89181377	89181377	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:89181377G>A	uc001xxg.2	-	10	1536	c.1350C>T	c.(1348-1350)TCC>TCT	p.S450S	EML5_uc001xxh.1_5'UTR	NM_183387	NP_899243	Q05BV3	EMAL5_HUMAN	echinoderm microtubule associated protein like	450	WD 9.					cytoplasm|microtubule				ovary(3)	3						TGAAACTAAGGGATCCCAAAC	0.408													26	20	---	---	---	---	PASS
FOXN3	1112	broad.mit.edu	37	14	89878376	89878376	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:89878376G>A	uc001xxo.3	-	2	582	c.445C>T	c.(445-447)CCG>TCG	p.P149S	FOXN3_uc001xxn.3_Missense_Mutation_p.P149S|FOXN3_uc010atk.2_Missense_Mutation_p.P149S|FOXN3_uc001xxp.2_Missense_Mutation_p.P149S	NM_001085471	NP_001078940	O00409	FOXN3_HUMAN	checkpoint suppressor 1 isoform 1	149	Fork-head.				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						GCAAAATACGGAAAATGTTCC	0.438													33	51	---	---	---	---	PASS
TDP1	55775	broad.mit.edu	37	14	90450857	90450857	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:90450857C>T	uc001xxy.2	+						TDP1_uc010atm.2_Intron|TDP1_uc001xxz.2_Intron|TDP1_uc010atn.2_Intron|TDP1_uc001xya.2_Intron|TDP1_uc001xyb.2_Intron|TDP1_uc010ato.2_Intron|TDP1_uc001xyd.1_5'Flank	NM_018319	NP_060789	Q9NUW8	TYDP1_HUMAN	tyrosyl-DNA phosphodiesterase 1						cell death|double-strand break repair|single strand break repair	cytoplasm|nucleus	3'-tyrosyl-DNA phosphodiesterase activity|double-stranded DNA binding|exonuclease activity|protein binding|single-stranded DNA binding			ovary(2)	2		all_cancers(154;0.185)		COAD - Colon adenocarcinoma(157;0.23)		TTTTTAATTCCAGAATATGGT	0.393								Repair_of_DNA-protein_crosslinks					53	61	---	---	---	---	PASS
UBR7	55148	broad.mit.edu	37	14	93676181	93676181	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:93676181G>A	uc001ybm.3	+	2	398	c.162G>A	c.(160-162)AAG>AAA	p.K54K	C14orf142_uc001ybl.1_5'Flank|UBR7_uc001ybn.3_Intron|UBR7_uc010auq.2_5'UTR	NM_175748	NP_786924	Q8N806	UBR7_HUMAN	ubiquitin protein ligase E3 component n-recognin	54	UBR-type.						ubiquitin-protein ligase activity|zinc ion binding				0						GCTCAGTAAAGAGACAAGCAC	0.403													5	18	---	---	---	---	PASS
BTBD7	55727	broad.mit.edu	37	14	93708946	93708946	+	Silent	SNP	C	T	T	rs141130270		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:93708946C>T	uc001ybo.2	-	11	3398	c.3072G>A	c.(3070-3072)CCG>CCA	p.P1024P	BTBD7_uc010aur.2_Silent_p.P549P|BTBD7_uc010two.1_Silent_p.P844P|BTBD7_uc001ybp.2_Silent_p.P673P	NM_001002860	NP_001002860	Q9P203	BTBD7_HUMAN	BTB (POZ) domain containing 7 isoform 1	1024										pancreas(1)	1		all_cancers(154;0.08)		Epithelial(152;0.196)|COAD - Colon adenocarcinoma(157;0.212)|all cancers(159;0.223)		CCAGGTGTATCGGCTCATTCT	0.522													60	63	---	---	---	---	PASS
KIAA1409	57578	broad.mit.edu	37	14	94069764	94069764	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:94069764C>T	uc001ybv.1	+	23	3306	c.3223C>T	c.(3223-3225)CCT>TCT	p.P1075S	KIAA1409_uc001ybs.1_Nonsense_Mutation_p.R1075*	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment						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)		CTCCAAAATTCGTTGAGTATC	0.473													7	30	---	---	---	---	PASS
KIAA1409	57578	broad.mit.edu	37	14	94087360	94087360	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:94087360C>T	uc001ybv.1	+						KIAA1409_uc001ybs.1_Intron	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578							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)		GGTGAAATATCAGCCGGTTGA	0.353													9	56	---	---	---	---	PASS
KIAA1409	57578	broad.mit.edu	37	14	94088203	94088203	+	Missense_Mutation	SNP	C	T	T	rs141877928	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:94088203C>T	uc001ybv.1	+	28	4242	c.4159C>T	c.(4159-4161)CCA>TCA	p.P1387S	KIAA1409_uc001ybs.1_Missense_Mutation_p.P1365S	NM_020818	NP_065869	Q9P2D8	UNC79_HUMAN	hypothetical protein LOC57578	1542						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)		CGCACAAAGACCAAACGACCC	0.498													7	77	---	---	---	---	PASS
SERPINA5	5104	broad.mit.edu	37	14	95054239	95054239	+	Silent	SNP	G	A	A	rs146244413		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:95054239G>A	uc001ydm.2	+	3	750	c.540G>A	c.(538-540)ACG>ACA	p.T180T	SERPINA5_uc010ave.2_Silent_p.T180T|SERPINA5_uc001ydn.1_Silent_p.T180T	NM_000624	NP_000615	P05154	IPSP_HUMAN	serine (or cysteine) proteinase inhibitor, clade	180					fusion of sperm to egg plasma membrane|regulation of proteolysis|spermatogenesis	extracellular region|membrane|protein complex	acrosin binding|heparin binding|protease binding|serine-type endopeptidase inhibitor activity			ovary(2)	2				COAD - Colon adenocarcinoma(157;0.21)	Drotrecogin alfa(DB00055)|Urokinase(DB00013)	CAAAGCAAACGAAGGGCAAGA	0.483													35	35	---	---	---	---	PASS
DICER1	23405	broad.mit.edu	37	14	95557423	95557423	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:95557423G>A	uc001ydw.2	-	27	5733	c.5551C>T	c.(5551-5553)CGT>TGT	p.R1851C	DICER1_uc010avh.1_Missense_Mutation_p.R749C|DICER1_uc001ydv.2_Missense_Mutation_p.R1841C|DICER1_uc001ydx.2_Missense_Mutation_p.R1851C	NM_030621	NP_085124	Q9UPY3	DICER_HUMAN	dicer1	1851	DRBM.				negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|nerve development|neuron projection morphogenesis|peripheral nervous system myelin formation|positive regulation of myelination|positive regulation of Schwann cell differentiation|pre-miRNA processing|production of siRNA involved in RNA interference|targeting of mRNA for destruction involved in RNA interference	cytosol|RNA-induced silencing complex	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity			skin(2)|ovary(1)|pancreas(1)|lung(1)	5		all_cancers(154;0.0621)|all_epithelial(191;0.223)		Epithelial(152;0.211)|COAD - Colon adenocarcinoma(157;0.215)		ACAGGGGAACGGGGTACATTT	0.303			Mis F|N			pleuropulmonary blastoma			DICER_1_syndrome_|Familial_Multinodular_Goiter_				9	37	---	---	---	---	PASS
DICER1	23405	broad.mit.edu	37	14	95574758	95574758	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:95574758G>A	uc001ydw.2	-	16	2521	c.2339C>T	c.(2338-2340)CCT>CTT	p.P780L	DICER1_uc010avh.1_5'Flank|DICER1_uc001ydv.2_Missense_Mutation_p.P770L|DICER1_uc001ydx.2_Missense_Mutation_p.P780L	NM_030621	NP_085124	Q9UPY3	DICER_HUMAN	dicer1	780					negative regulation of Schwann cell proliferation|negative regulation of transcription from RNA polymerase II promoter|nerve development|neuron projection morphogenesis|peripheral nervous system myelin formation|positive regulation of myelination|positive regulation of Schwann cell differentiation|pre-miRNA processing|production of siRNA involved in RNA interference|targeting of mRNA for destruction involved in RNA interference	cytosol|RNA-induced silencing complex	ATP binding|ATP-dependent helicase activity|double-stranded RNA binding|metal ion binding|protein binding|ribonuclease III activity			skin(2)|ovary(1)|pancreas(1)|lung(1)	5		all_cancers(154;0.0621)|all_epithelial(191;0.223)		Epithelial(152;0.211)|COAD - Colon adenocarcinoma(157;0.215)		ATCAGGTAAAGGTGTAGTTAA	0.438			Mis F|N			pleuropulmonary blastoma			DICER_1_syndrome_|Familial_Multinodular_Goiter_				29	45	---	---	---	---	PASS
CLMN	79789	broad.mit.edu	37	14	95669744	95669744	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:95669744C>T	uc001yef.2	-	9	2058	c.1942G>A	c.(1942-1944)GAG>AAG	p.E648K		NM_024734	NP_079010	Q96JQ2	CLMN_HUMAN	calmin	648						integral to membrane	actin binding				0				Epithelial(152;0.193)		ACTGGTGTCTCTTCTGGGGCT	0.502													30	38	---	---	---	---	PASS
TCL1B	9623	broad.mit.edu	37	14	96157137	96157137	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:96157137C>T	uc001yez.2	+	2	269	c.227C>T	c.(226-228)TCC>TTC	p.S76F	TCL1B_uc001yew.2_RNA|TCL1B_uc001yex.2_RNA|TCL1B_uc010avj.2_RNA|TCL1B_uc001yfa.2_Missense_Mutation_p.S76F	NM_004918	NP_004909	O95988	TCL1B_HUMAN	T-cell leukemia/lymphoma 1B	76										ovary(1)	1		all_cancers(154;0.103)		COAD - Colon adenocarcinoma(157;0.205)|Epithelial(152;0.248)		CTACTCTCCTCCGGCCAGATG	0.577													4	35	---	---	---	---	PASS
BDKRB1	623	broad.mit.edu	37	14	96730835	96730835	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:96730835G>A	uc001yfh.2	+	3	1024	c.816G>A	c.(814-816)CTG>CTA	p.L272L	BDKRB1_uc010avn.2_Intron	NM_000710	NP_000701	P46663	BKRB1_HUMAN	bradykinin receptor B1	272	Helical; Name=6; (Potential).				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)		TTGCCTTCCTGGAATTCTTAT	0.562													24	25	---	---	---	---	PASS
ATG2B	55102	broad.mit.edu	37	14	96813608	96813608	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:96813608G>A	uc001yfi.2	-	2	598	c.233C>T	c.(232-234)TCC>TTC	p.S78F		NM_018036	NP_060506	Q96BY7	ATG2B_HUMAN	ATG2 autophagy related 2 homolog B	78										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)		AACTGACAGGGAAATTGACTG	0.453													20	11	---	---	---	---	PASS
SETD3	84193	broad.mit.edu	37	14	99865013	99865013	+	3'UTR	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:99865013G>A	uc001ygc.2	-	13						NM_032233	NP_115609	Q86TU7	SETD3_HUMAN	SET domain containing 3 isoform a						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)				GCTTCACCTCGAGCTACTCCT	0.478													7	81	---	---	---	---	PASS
CCNK	8812	broad.mit.edu	37	14	99968655	99968655	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:99968655C>T	uc001ygi.3	+	7	817	c.687C>T	c.(685-687)CCC>CCT	p.P229P	CCNK_uc001ygg.3_Silent_p.P229P	NM_001099402	NP_001092872	O75909	CCNK_HUMAN	cyclin K isoform 1	229					cell division|mitosis|regulation of cyclin-dependent protein kinase activity|regulation of transcription, DNA-dependent|transcription from RNA polymerase II promoter		protein kinase binding				0		all_cancers(154;0.224)|all_epithelial(191;0.0643)|Melanoma(154;0.0866)				CCTCCAAACCCATGTATAGGA	0.483													6	32	---	---	---	---	PASS
HHIPL1	84439	broad.mit.edu	37	14	100129338	100129338	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:100129338C>T	uc010avs.2	+	6	1693	c.1628C>T	c.(1627-1629)TCC>TTC	p.S543F	HHIPL1_uc001ygl.1_Missense_Mutation_p.S543F	NM_001127258	NP_001120730	Q96JK4	HIPL1_HUMAN	HHIP-like protein 1 isoform a	543					carbohydrate metabolic process	extracellular region|membrane	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor|quinone binding|scavenger receptor activity			skin(2)	2		Melanoma(154;0.128)				TACATCATCTCCTTCGGGGAG	0.602													5	48	---	---	---	---	PASS
HHIPL1	84439	broad.mit.edu	37	14	100134553	100134553	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:100134553C>T	uc010avs.2	+						HHIPL1_uc001ygl.1_Intron	NM_001127258	NP_001120730	Q96JK4	HIPL1_HUMAN	HHIP-like protein 1 isoform a						carbohydrate metabolic process	extracellular region|membrane	oxidoreductase activity, acting on the CH-OH group of donors, quinone or similar compound as acceptor|quinone binding|scavenger receptor activity			skin(2)	2		Melanoma(154;0.128)				TTTGTTCTGTCCAAAGGGGAG	0.587													22	17	---	---	---	---	PASS
MIR329-1	574408	broad.mit.edu	37	14	101493169	101493169	+	RNA	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:101493169G>A	hsa-mir-329-1|MI0001725	+			c.48G>A			MIR329-2_hsa-mir-329-2|MI0001726_5'Flank|MIR494_hsa-mir-494|MI0003134_5'Flank|uc010txm.1_5'Flank																	0						TAATGAGGACGAAACACACCT	0.468													9	64	---	---	---	---	PASS
PPP2R5C	5527	broad.mit.edu	37	14	102372829	102372829	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:102372829C>T	uc001yko.2	+	10	1254	c.1114C>T	c.(1114-1116)CCT>TCT	p.P372S	PPP2R5C_uc010txr.1_Missense_Mutation_p.P403S|PPP2R5C_uc001ykk.2_Missense_Mutation_p.P427S|PPP2R5C_uc010txt.1_Missense_Mutation_p.P362S|PPP2R5C_uc001ykn.2_Missense_Mutation_p.P372S|PPP2R5C_uc001ykp.2_Missense_Mutation_p.P372S|PPP2R5C_uc001ykq.2_Intron	NM_002719	NP_002710	Q13362	2A5G_HUMAN	gamma isoform of regulatory subunit B56, protein	372					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						CATCATGTTTCCTTCCTTGTA	0.413													9	72	---	---	---	---	PASS
PPP2R5C	5527	broad.mit.edu	37	14	102375971	102375971	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:102375971G>T	uc001yko.2	+	11	1337	c.1197G>T	c.(1195-1197)GAG>GAT	p.E399D	PPP2R5C_uc010txr.1_Missense_Mutation_p.E430D|PPP2R5C_uc001ykk.2_Missense_Mutation_p.E454D|PPP2R5C_uc001ykn.2_Missense_Mutation_p.E399D|PPP2R5C_uc001ykp.2_Missense_Mutation_p.E399D|PPP2R5C_uc001ykq.2_Missense_Mutation_p.D255Y	NM_002719	NP_002710	Q13362	2A5G_HUMAN	gamma isoform of regulatory subunit B56, protein	399					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						TCTTCATGGAGATGAACCAAA	0.438													12	73	---	---	---	---	PASS
DYNC1H1	1778	broad.mit.edu	37	14	102442056	102442056	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:102442056C>T	uc001yks.2	+	2	428	c.264C>T	c.(262-264)GTC>GTT	p.V88V		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	88	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						TAGAGGACGTCGGTGATGAAG	0.303													26	28	---	---	---	---	PASS
DYNC1H1	1778	broad.mit.edu	37	14	102476637	102476637	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:102476637C>T	uc001yks.2	+	31	6410	c.6246C>T	c.(6244-6246)TCC>TCT	p.S2082S		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	2082	AAA 1 (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						AGCTCTCTTCCCAAAGCCATT	0.413													25	31	---	---	---	---	PASS
DYNC1H1	1778	broad.mit.edu	37	14	102505342	102505342	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:102505342A>T	uc001yks.2	+	60	11375	c.11211A>T	c.(11209-11211)GAA>GAT	p.E3737D		NM_001376	NP_001367	Q14204	DYHC1_HUMAN	cytoplasmic dynein 1 heavy chain 1	3737	Potential.|AAA 5 (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						TTTAAGGGGAATTTCAGCTCC	0.428													38	37	---	---	---	---	PASS
TECPR2	9895	broad.mit.edu	37	14	102906767	102906767	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:102906767C>T	uc001ylw.1	+						TECPR2_uc010awl.2_Intron|TECPR2_uc010txx.1_Intron	NM_014844	NP_055659	O15040	TCPR2_HUMAN	tectonin beta-propeller repeat containing 2								protein binding			lung(1)|central_nervous_system(1)|skin(1)	3						ATTTTTATTTCCATAGGAGCC	0.408													46	38	---	---	---	---	PASS
TECPR2	9895	broad.mit.edu	37	14	102931580	102931580	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:102931580C>T	uc001ylw.1	+	17	3891	c.3743C>T	c.(3742-3744)CCC>CTC	p.P1248L	TECPR2_uc010awl.2_Missense_Mutation_p.P1248L|TECPR2_uc010txx.1_Missense_Mutation_p.P411L	NM_014844	NP_055659	O15040	TCPR2_HUMAN	tectonin beta-propeller repeat containing 2	1248	TECPR 4.						protein binding			lung(1)|central_nervous_system(1)|skin(1)	3						CCTCTCAATCCCAGTCTCATG	0.493													19	33	---	---	---	---	PASS
CDC42BPB	9578	broad.mit.edu	37	14	103410835	103410835	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:103410835G>A	uc001ymi.1	-						CDC42BPB_uc001ymj.1_Intron	NM_006035	NP_006026	Q9Y5S2	MRCKB_HUMAN	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)		CTGTGGCAAGGAGGACAAGAG	0.622													5	16	---	---	---	---	PASS
PPP1R13B	23368	broad.mit.edu	37	14	104206338	104206338	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:104206338G>A	uc001yof.1	-	12	2698	c.2415C>T	c.(2413-2415)ATC>ATT	p.I805I	PPP1R13B_uc010awv.1_RNA|PPP1R13B_uc001yog.1_Silent_p.I672I	NM_015316	NP_056131	Q96KQ4	ASPP1_HUMAN	apoptosis-stimulating protein of p53, 1	805	Pro-rich.				apoptosis|induction of apoptosis|negative regulation of cell cycle	cytoplasm|nucleus|plasma membrane	protein binding			ovary(1)	1		all_cancers(154;0.173)|all_epithelial(191;0.131)|Melanoma(154;0.155)				TTTGGGGACAGATGAGCTCCT	0.622													19	24	---	---	---	---	PASS
AHNAK2	113146	broad.mit.edu	37	14	105405869	105405869	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:105405869G>A	uc010axc.1	-	7	16039	c.15919C>T	c.(15919-15921)CCT>TCT	p.P5307S	AHNAK2_uc001ypx.2_Missense_Mutation_p.P5207S	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	5307						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)			ATCTGAAAAGGGAGAGGTCCT	0.527													23	19	---	---	---	---	PASS
AHNAK2	113146	broad.mit.edu	37	14	105405870	105405870	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:105405870G>A	uc010axc.1	-	7	16038	c.15918C>T	c.(15916-15918)CTC>CTT	p.L5306L	AHNAK2_uc001ypx.2_Silent_p.L5206L	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	5306						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)			TCTGAAAAGGGAGAGGTCCTT	0.527													23	20	---	---	---	---	PASS
AHNAK2	113146	broad.mit.edu	37	14	105408689	105408689	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:105408689G>A	uc010axc.1	-	7	13219	c.13099C>T	c.(13099-13101)CCA>TCA	p.P4367S	AHNAK2_uc001ypx.2_Missense_Mutation_p.P4267S	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	4367						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)			GGGCCCTCTGGGAGTTTCACA	0.617													57	51	---	---	---	---	PASS
AHNAK2	113146	broad.mit.edu	37	14	105411071	105411071	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:105411071C>T	uc010axc.1	-	7	10837	c.10717G>A	c.(10717-10719)GGC>AGC	p.G3573S	AHNAK2_uc001ypx.2_Missense_Mutation_p.G3473S	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3573						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)			ATCTGGGGGCCCTTGAGGTCC	0.622													24	134	---	---	---	---	PASS
AHNAK2	113146	broad.mit.edu	37	14	105412215	105412215	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:105412215G>A	uc010axc.1	-	7	9693	c.9573C>T	c.(9571-9573)ATC>ATT	p.I3191I	AHNAK2_uc001ypx.2_Silent_p.I3091I	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	3191						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)			GCTCAATGCTGATGTCAGTGT	0.627													30	20	---	---	---	---	PASS
AHNAK2	113146	broad.mit.edu	37	14	105416597	105416597	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:105416597G>A	uc010axc.1	-	7	5311	c.5191C>T	c.(5191-5193)CTT>TTT	p.L1731F	AHNAK2_uc001ypx.2_Missense_Mutation_p.L1631F	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	1731						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)			CCCTCGGGAAGGGGGCCCTCC	0.632													81	69	---	---	---	---	PASS
AHNAK2	113146	broad.mit.edu	37	14	105420408	105420408	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:105420408G>A	uc010axc.1	-	7	1500	c.1380C>T	c.(1378-1380)ATC>ATT	p.I460I	AHNAK2_uc001ypx.2_Silent_p.I360I	NM_138420	NP_612429	Q8IVF2	AHNK2_HUMAN	AHNAK nucleoprotein 2	460						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)			TGGCGATCCCGATTTCCAGGC	0.572													19	23	---	---	---	---	PASS
ADAM6	8755	broad.mit.edu	37	14	106091377	106091377	+	RNA	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:106091377C>T	uc010tyt.1	-	3647		c.62131G>A			uc001yrs.2_Intron|uc001yrt.2_Intron|uc001yrw.1_Intron|uc001yrx.1_Intron					Parts of antibodies, mostly variable regions.												0						AACTGCTCCTCCCGCGGCTTT	0.592													21	219	---	---	---	---	PASS
ADAM6	8755	broad.mit.edu	37	14	106321812	106321812	+	RNA	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:106321812G>A	uc010tyt.1	-	3599		c.55584C>T			uc001yrs.2_Intron|uc001yrt.2_Intron|uc001yrw.1_Intron|uc001yrx.1_Intron|uc001yrz.1_Intron|uc001yse.2_Intron|uc001ysf.2_Intron|uc001ysj.2_Intron|uc001ysk.1_Intron|uc001ysl.1_Intron|uc001ysm.1_Intron|uc001ysn.1_Intron|uc001yso.1_Intron					Parts of antibodies, mostly variable regions.												0						AATCTGCCGGGGACTGAAACC	0.662													9	8	---	---	---	---	PASS
ADAM6	8755	broad.mit.edu	37	14	106406009	106406009	+	RNA	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:106406009C>T	uc010tyt.1	-	2357		c.42138G>A								Parts of antibodies, mostly variable regions.												0						GACACTGACCCCATGGGAGGC	0.552													12	11	---	---	---	---	PASS
ADAM6	8755	broad.mit.edu	37	14	106452981	106452981	+	Intron	SNP	G	A	A	rs113735574		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:106452981G>A	uc010tyt.1	-											Parts of antibodies, mostly variable regions.												0						GGCTCCTGTGGAGAGAACACA	0.572													12	54	---	---	---	---	PASS
ADAM6	8755	broad.mit.edu	37	14	106586560	106586560	+	RNA	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:106586560G>A	uc010tyt.1	-	1284		c.27758C>T			uc001ysv.2_Intron					Parts of antibodies, mostly variable regions.												0						ATAGCAACAAGGAAAACCCAG	0.468													23	133	---	---	---	---	PASS
ADAM6	8755	broad.mit.edu	37	14	106641581	106641581	+	RNA	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:106641581G>A	uc010tyt.1	-	1021		c.24420C>T								Parts of antibodies, mostly variable regions.												0						AGTAATACACGGCCGTGTCGT	0.537													91	80	---	---	---	---	PASS
ADAM6	8755	broad.mit.edu	37	14	106725383	106725383	+	RNA	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:106725383G>A	uc010tyt.1	-	588		c.18164C>T								Parts of antibodies, mostly variable regions.												0						GGAGCCTGGCGGACCCAGCTC	0.597													79	218	---	---	---	---	PASS
ADAM6	8755	broad.mit.edu	37	14	106805452	106805452	+	RNA	SNP	C	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:106805452C>G	uc010tyt.1	-	360		c.13756G>C			uc001ysw.1_5'Flank					Parts of antibodies, mostly variable regions.												0						AGGTGAGGGACAGGGTCTGTG	0.617													8	105	---	---	---	---	PASS
ADAM6	8755	broad.mit.edu	37	14	107282958	107282958	+	RNA	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:107282958T>C	uc010tyt.1	-	2		c.108A>G			uc001ytb.1_Missense_Mutation_p.Q62R					Parts of antibodies, mostly variable regions.												0						CTCAAGCCCTTGTCCAGGGGC	0.557													20	137	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	15	20644853	20644853	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:20644853C>T	uc001ytg.2	-	21	3114	c.2405G>A	c.(2404-2406)AGG>AAG	p.R802K	uc010tyx.1_RNA|uc001yth.3_Missense_Mutation_p.R802K|uc010tyy.1_Missense_Mutation_p.R802K					RecName: Full=Putative HERC2-like protein 3;																		GTCCCTCGCCCTTTCGGTCTT	0.453													6	44	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	15	20649560	20649560	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:20649560C>T	uc001ytg.2	-	18	2658	c.1949G>A	c.(1948-1950)GGA>GAA	p.G650E	uc010tyx.1_RNA|uc001yth.3_Missense_Mutation_p.G650E|uc010tyy.1_Missense_Mutation_p.G650E					RecName: Full=Putative HERC2-like protein 3;																		GTCGTAATTTCCTTCTTTCCC	0.592													25	113	---	---	---	---	PASS
CYFIP1	23191	broad.mit.edu	37	15	22955156	22955156	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:22955156C>T	uc001yus.2	+	15	1654	c.1550C>T	c.(1549-1551)ACC>ATC	p.T517I	CYFIP1_uc001yut.2_Missense_Mutation_p.T517I|CYFIP1_uc010aya.1_Missense_Mutation_p.T545I|CYFIP1_uc001yuu.2_5'Flank	NM_014608	NP_055423	Q7L576	CYFP1_HUMAN	cytoplasmic FMR1 interacting protein 1 isoform	517					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)		ATCAGGAAGACCGTGTGTGAC	0.607													19	30	---	---	---	---	PASS
MKRN3	7681	broad.mit.edu	37	15	23811263	23811263	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:23811263G>A	uc001ywh.3	+	1	810	c.334G>A	c.(334-336)GGG>AGG	p.G112R	MKRN3_uc001ywi.2_Intron|MKRN3_uc010ayi.1_Missense_Mutation_p.G112R	NM_005664	NP_005655	Q13064	MKRN3_HUMAN	makorin ring finger protein 3	112	C3H1-type 1.					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)		GTGCAAGGAGGGGGAGAACTG	0.597													15	29	---	---	---	---	PASS
MAGEL2	54551	broad.mit.edu	37	15	23890071	23890071	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:23890071G>A	uc001ywj.3	-	1	1105	c.1010C>T	c.(1009-1011)CCC>CTC	p.P337L		NM_019066	NP_061939			MAGE-like protein 2												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;1.84e-06)|Epithelial(43;1.2e-05)|BRCA - Breast invasive adenocarcinoma(123;0.00177)		CAGGCCACGGGGGGTGTTTGG	0.657													16	21	---	---	---	---	PASS
C15orf2	23742	broad.mit.edu	37	15	24921171	24921171	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:24921171C>T	uc001ywo.2	+	1	631	c.157C>T	c.(157-159)CGG>TGG	p.R53W		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	53					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)		CCTGTTCCGCCGGAACGCCCG	0.756													4	9	---	---	---	---	PASS
C15orf2	23742	broad.mit.edu	37	15	24921212	24921212	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:24921212C>T	uc001ywo.2	+	1	672	c.198C>T	c.(196-198)GTC>GTT	p.V66V		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	66					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)		GCATCTTCGTCGCCCCTAAGA	0.721													5	10	---	---	---	---	PASS
C15orf2	23742	broad.mit.edu	37	15	24921772	24921772	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:24921772G>A	uc001ywo.2	+	1	1232	c.758G>A	c.(757-759)GGA>GAA	p.G253E		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	253					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)		CGGCATCTTGGAAAGCCTGAT	0.637													5	27	---	---	---	---	PASS
C15orf2	23742	broad.mit.edu	37	15	24921840	24921840	+	Silent	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:24921840T>C	uc001ywo.2	+	1	1300	c.826T>C	c.(826-828)TTG>CTG	p.L276L		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	276					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)		GCAGCAGAAGTTGGCTGCGGA	0.612													9	22	---	---	---	---	PASS
C15orf2	23742	broad.mit.edu	37	15	24922790	24922790	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:24922790C>T	uc001ywo.2	+	1	2250	c.1776C>T	c.(1774-1776)TCC>TCT	p.S592S		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	592					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)		TCACATCTTCCCTAAGCTCCA	0.488													19	32	---	---	---	---	PASS
C15orf2	23742	broad.mit.edu	37	15	24923080	24923080	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:24923080C>T	uc001ywo.2	+	1	2540	c.2066C>T	c.(2065-2067)TCA>TTA	p.S689L		NM_018958	NP_061831	Q9NZP6	CO002_HUMAN	hypothetical protein LOC23742	689					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)		TCTACAGCATCATCATCCAAA	0.512													15	90	---	---	---	---	PASS
SNORD116-4	100033416	broad.mit.edu	37	15	25342901	25342901	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:25342901C>T	uc001yxh.1	+						SNORD116-4_uc001yxm.1_Intron|IPW_uc001yxn.3_Intron|SNORD116-28_uc001yxy.2_Intron|IPW_uc001yyb.3_Intron|uc001yyd.2_Intron|SNORD116-25_uc001yyk.2_RNA|SNORD116-26_uc001yyl.2_5'Flank					Homo sapiens clone kid4 SNURF-SNRPN mRNA, downstream untranslated exons, alternatively spliced.												0						AGCTGAGGTCCAGCACAGGGG	0.468													16	32	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	15	25422016	25422016	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:25422016G>A	uc001yys.1	+						SNORD115-4_uc001yyu.1_RNA|SNORD115-5_uc001yyv.1_5'Flank					Homo sapiens clone Rt-5 SNURF-SNRPN mRNA, downstream untranslated exons, alternatively spliced.																		TCTGAAGAGAGGTGATGACTT	0.542													69	147	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	15	25429444	25429444	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:25429444C>T	uc001yyy.1	+						uc001yza.1_Intron|SNORD115-8_uc001yzb.1_5'Flank|SNORD115-9_uc001yzc.1_5'Flank					Homo sapiens clone Rt-7 SNURF-SNRPN mRNA, downstream untranslated exons, alternatively spliced.																		GAGGGGGGTTCCCTGGGTTGG	0.532													38	108	---	---	---	---	PASS
SNORD115-14	100033451	broad.mit.edu	37	15	25438473	25438473	+	5'Flank	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:25438473G>A	uc001yzj.1	+						SNORD115-13_uc001yzf.1_RNA|SNORD115-13_uc001yzh.2_RNA	NR_003306				Homo sapiens small nucleolar RNA, C/D box 115-14 (SNORD115-14), non-coding RNA.												0						GAGTTGGGTCGATGATGAGAA	0.527													68	158	---	---	---	---	PASS
ATP10A	57194	broad.mit.edu	37	15	25925106	25925106	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:25925106G>A	uc010ayu.2	-	21	3988	c.3882C>T	c.(3880-3882)TCC>TCT	p.S1294S		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	1294	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)		TCCCCTGGAGGGATCTGAAAA	0.483													18	73	---	---	---	---	PASS
ATP10A	57194	broad.mit.edu	37	15	25972344	25972344	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:25972344C>T	uc010ayu.2	-	4	916	c.810G>A	c.(808-810)AGG>AGA	p.R270R		NM_024490	NP_077816	O60312	AT10A_HUMAN	ATPase, class V, type 10A	270	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)		CGTCCGTGTTCCTAAGGGTGC	0.582													14	31	---	---	---	---	PASS
HERC2	8924	broad.mit.edu	37	15	28386602	28386602	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:28386602G>A	uc001zbj.2	-	78	12097	c.11991C>T	c.(11989-11991)CTC>CTT	p.L3997L		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	3997	RCC1 13.				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)		TCACAGCAAAGAGGGTCTGTT	0.522													11	33	---	---	---	---	PASS
HERC2	8924	broad.mit.edu	37	15	28391399	28391399	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:28391399G>A	uc001zbj.2	-	71	11098	c.10992C>T	c.(10990-10992)ATC>ATT	p.I3664I		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	3664					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)		GCACGGAGACGATCCTGTTGA	0.562													11	24	---	---	---	---	PASS
HERC2	8924	broad.mit.edu	37	15	28413656	28413656	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:28413656G>A	uc001zbj.2	-	67	10416	c.10310C>T	c.(10309-10311)TCC>TTC	p.S3437F		NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	3437					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)		AGATGCGTCGGAAGGGGCCGC	0.577													16	26	---	---	---	---	PASS
HERC2	8924	broad.mit.edu	37	15	28508279	28508279	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:28508279T>A	uc001zbj.2	-	15	2013	c.1907A>T	c.(1906-1908)AAA>ATA	p.K636I	HERC2_uc001zbl.1_Missense_Mutation_p.K331I	NM_004667	NP_004658	O95714	HERC2_HUMAN	hect domain and RLD 2	636	RCC1 3.				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)		TCTGCCCAATTTCCCATAGTC	0.408													10	44	---	---	---	---	PASS
APBA2	321	broad.mit.edu	37	15	29346206	29346206	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:29346206G>A	uc001zck.2	+	3	326	c.119G>A	c.(118-120)GGC>GAC	p.G40D	APBA2_uc010azj.2_Missense_Mutation_p.G40D|APBA2_uc010uat.1_Missense_Mutation_p.G40D|APBA2_uc001zcl.2_Missense_Mutation_p.G40D|APBA2_uc010uas.1_Missense_Mutation_p.G40D	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	40					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)		CCCTTGGAGGGCTATGTGCCC	0.677													7	21	---	---	---	---	PASS
APBA2	321	broad.mit.edu	37	15	29346759	29346759	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:29346759G>A	uc001zck.2	+	3	879	c.672G>A	c.(670-672)GAG>GAA	p.E224E	APBA2_uc010azj.2_Silent_p.E224E|APBA2_uc010uat.1_Silent_p.E224E|APBA2_uc001zcl.2_Silent_p.E224E|APBA2_uc010uas.1_Silent_p.E224E	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	224	STXBP1-binding.				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)		ACCAGGAGGAGGACATTGACC	0.652													4	9	---	---	---	---	PASS
APBA2	321	broad.mit.edu	37	15	29400587	29400587	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:29400587G>A	uc001zck.2	+	12	2239	c.2032G>A	c.(2032-2034)GGA>AGA	p.G678R	APBA2_uc010azj.2_Missense_Mutation_p.G666R|APBA2_uc010uat.1_Missense_Mutation_p.G666R|APBA2_uc001zcl.2_Missense_Mutation_p.G666R	NM_005503	NP_005494	Q99767	APBA2_HUMAN	amyloid beta A4 precursor protein-binding,	678	PDZ 2.				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)		CGTGCAGAATGGAATTGTGAG	0.617													23	41	---	---	---	---	PASS
TJP1	7082	broad.mit.edu	37	15	30058721	30058721	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:30058721G>A	uc001zcr.2	-	5	812	c.337C>T	c.(337-339)CAA>TAA	p.Q113*	TJP1_uc010azl.2_Nonsense_Mutation_p.Q101*|TJP1_uc001zcq.2_Nonsense_Mutation_p.Q117*|TJP1_uc001zcs.2_Nonsense_Mutation_p.Q113*	NM_003257	NP_003248	Q07157	ZO1_HUMAN	tight junction protein 1 isoform a	113					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)		ACTGGTATTTGAACTTTCTTC	0.353													13	29	---	---	---	---	PASS
FMN1	342184	broad.mit.edu	37	15	33200686	33200686	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:33200686C>T	uc001zhf.3	-							NM_001103184	NP_001096654	Q68DA7	FMN1_HUMAN	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)		GTTAAGTATCCTTACTGCTCA	0.403													4	24	---	---	---	---	PASS
FMN1	342184	broad.mit.edu	37	15	33261033	33261033	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:33261033G>A	uc001zhf.3	-	4	2200	c.2200C>T	c.(2200-2202)CCT>TCT	p.P734S		NM_001103184	NP_001096654	Q68DA7	FMN1_HUMAN	formin 1	957	FH1.|Pro-rich.				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)		AAGAGTCCAGGGGGAGGTGGG	0.517													22	45	---	---	---	---	PASS
FMN1	342184	broad.mit.edu	37	15	33261034	33261034	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:33261034G>A	uc001zhf.3	-	4	2199	c.2199C>T	c.(2197-2199)CCC>CCT	p.P733P		NM_001103184	NP_001096654	Q68DA7	FMN1_HUMAN	formin 1	956	FH1.|Pro-rich.				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)		AGAGTCCAGGGGGAGGTGGGG	0.517													22	44	---	---	---	---	PASS
FMN1	342184	broad.mit.edu	37	15	33261074	33261074	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:33261074G>A	uc001zhf.3	-	4	2159	c.2159C>T	c.(2158-2160)CCT>CTT	p.P720L		NM_001103184	NP_001096654	Q68DA7	FMN1_HUMAN	formin 1	943	FH1.|Pro-rich.				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)		TGGAGCAGGAGGAGGCCCTCC	0.473													13	16	---	---	---	---	PASS
RYR3	6263	broad.mit.edu	37	15	33993236	33993236	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:33993236C>A	uc001zhi.2	+	42	6508	c.6438C>A	c.(6436-6438)GAC>GAA	p.D2146E	RYR3_uc010bar.2_Missense_Mutation_p.D2146E	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2146	4 X approximate repeats.|Cytoplasmic (By similarity).				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)		CTGTGATGGACAACAATGAGT	0.567											OREG0023030	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	15	---	---	---	---	PASS
RYR3	6263	broad.mit.edu	37	15	34015006	34015006	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:34015006G>A	uc001zhi.2	+	44	6780	c.6710G>A	c.(6709-6711)GGA>GAA	p.G2237E	RYR3_uc010bar.2_Missense_Mutation_p.G2237E	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2237	4 X approximate repeats.|Cytoplasmic (By similarity).				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)		GGTGAGGGGGGAAACGGGCTC	0.572													36	68	---	---	---	---	PASS
RYR3	6263	broad.mit.edu	37	15	34047308	34047308	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:34047308G>A	uc001zhi.2	+	58	8512	c.8442G>A	c.(8440-8442)AAG>AAA	p.K2814K	RYR3_uc010bar.2_Silent_p.K2814K	NM_001036	NP_001027	Q15413	RYR3_HUMAN	ryanodine receptor 3	2814	4.|Cytoplasmic (By similarity).|4 X approximate repeats.				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)		CCATGGAGAAGAGGTTTGCCT	0.433													10	20	---	---	---	---	PASS
RYR3	6263	broad.mit.edu	37	15	34115188	34115188	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:34115188C>T	uc001zhi.2	+						RYR3_uc010bar.2_Intron	NM_001036	NP_001027	Q15413	RYR3_HUMAN	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)		CAACGTGTCTCCCTTGCAGAA	0.458													15	29	---	---	---	---	PASS
AVEN	57099	broad.mit.edu	37	15	34159869	34159869	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:34159869T>G	uc001zhj.2	-	5	856	c.800A>C	c.(799-801)GAT>GCT	p.D267A		NM_020371	NP_065104	Q9NQS1	AVEN_HUMAN	cell death regulator aven	267					anti-apoptosis|apoptosis	endomembrane system|intracellular|membrane|membrane fraction	protein binding			kidney(1)	1		all_lung(180;1.78e-08)		all cancers(64;1.66e-15)|GBM - Glioblastoma multiforme(113;1.42e-05)|BRCA - Breast invasive adenocarcinoma(123;0.0359)		TTTCTGAGAATCCCTTGAAGG	0.522													16	42	---	---	---	---	PASS
SLC12A6	9990	broad.mit.edu	37	15	34544597	34544597	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:34544597G>A	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	Q9UHW9	S12A6_HUMAN	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)	TAAGTGAAAAGAAATAGGGAG	0.383													10	25	---	---	---	---	PASS
SLC12A6	9990	broad.mit.edu	37	15	34551145	34551145	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:34551145C>T	uc001zhw.2	-	4	576	c.412G>A	c.(412-414)GAA>AAA	p.E138K	SLC12A6_uc001zhv.2_Missense_Mutation_p.E87K|SLC12A6_uc001zhx.2_Missense_Mutation_p.E123K|SLC12A6_uc001zhy.2_RNA|SLC12A6_uc001zhz.2_RNA|SLC12A6_uc001zia.2_Missense_Mutation_p.E79K|SLC12A6_uc001zib.2_Missense_Mutation_p.E129K|SLC12A6_uc001zic.2_Missense_Mutation_p.E138K|SLC12A6_uc010bau.2_Missense_Mutation_p.E138K|SLC12A6_uc001zid.2_Missense_Mutation_p.E79K|SLC12A6_uc001zhu.2_5'UTR	NM_133647	NP_598408	Q9UHW9	S12A6_HUMAN	solute carrier family 12, member 6 isoform a	138	Cytoplasmic (Potential).				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)	TCCATTTCTTCCTATAAAGCC	0.388													7	21	---	---	---	---	PASS
C15orf55	256646	broad.mit.edu	37	15	34648436	34648436	+	Missense_Mutation	SNP	G	A	A	rs140018699		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:34648436G>A	uc001zif.2	+	7	2298	c.2143G>A	c.(2143-2145)GAT>AAT	p.D715N	C15orf55_uc010ucc.1_Missense_Mutation_p.D743N|C15orf55_uc010ucd.1_Missense_Mutation_p.D733N	NM_175741	NP_786883	Q86Y26	NUT_HUMAN	nuclear protein in testis	715						cytoplasm|nucleus			BRD4_ENST00000263377/C15orf55(24)|BRD3/C15orf55(3)	midline_organs(25)|ovary(2)|lung(2)|skin(1)	30		all_lung(180;2.78e-08)		all cancers(64;4.53e-18)|GBM - Glioblastoma multiforme(113;8.29e-08)|BRCA - Breast invasive adenocarcinoma(123;0.0249)		GGAGAGGGACGATGTCTGTCT	0.542			T	BRD3|BRD4	lethal midline carcinoma								15	26	---	---	---	---	PASS
AQR	9716	broad.mit.edu	37	15	35149101	35149101	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:35149101G>A	uc001ziv.2	-	35	4531	c.4350C>T	c.(4348-4350)GCC>GCT	p.A1450A		NM_014691	NP_055506	O60306	AQR_HUMAN	aquarius	1450						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)		AAGCAGGGATGGCTTCTGGAG	0.552													18	36	---	---	---	---	PASS
AQR	9716	broad.mit.edu	37	15	35202474	35202474	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:35202474G>A	uc001ziv.2	-	17	1706	c.1525C>T	c.(1525-1527)CGA>TGA	p.R509*		NM_014691	NP_055506	O60306	AQR_HUMAN	aquarius	509						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)		TGGGCCATTCGCGCCCAACCA	0.443													11	17	---	---	---	---	PASS
MEIS2	4212	broad.mit.edu	37	15	37242608	37242608	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:37242608G>A	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	O14770	MEIS2_HUMAN	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)		GATGCTAATGGAAAAACAAAT	0.378													14	36	---	---	---	---	PASS
THBS1	7057	broad.mit.edu	37	15	39874751	39874751	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:39874751C>T	uc001zkh.2	+	3	604	c.425C>T	c.(424-426)TCT>TTT	p.S142F		NM_003246	NP_003237	P07996	TSP1_HUMAN	thrombospondin 1 precursor	142	TSP N-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)	CACGTGGTGTCTGTGGAAGAA	0.587													8	16	---	---	---	---	PASS
EIF2AK4	440275	broad.mit.edu	37	15	40293219	40293219	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:40293219G>A	uc001zkm.1	+	21	3003	c.2953G>A	c.(2953-2955)GAT>AAT	p.D985N	EIF2AK4_uc010bbj.1_Missense_Mutation_p.D686N|EIF2AK4_uc001zkn.1_Missense_Mutation_p.D85N|EIF2AK4_uc001zko.1_5'Flank	NM_001013703	NP_001013725	Q9P2K8	E2AK4_HUMAN	eukaryotic translation initiation factor 2 alpha	985	Protein kinase 2.				translation	cytosolic ribosome	aminoacyl-tRNA ligase activity|ATP binding|eukaryotic translation initiation factor 2alpha kinase activity|protein homodimerization activity			lung(2)|stomach(1)|skin(1)	4		all_cancers(109;1.05e-19)|all_epithelial(112;4.38e-17)|Lung NSC(122;1.09e-12)|all_lung(180;3.56e-11)|Melanoma(134;0.0575)|Ovarian(310;0.0826)|Colorectal(260;0.119)		GBM - Glioblastoma multiforme(113;5.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.0616)		GTTGAACCACGATCCAGCAAA	0.527													34	65	---	---	---	---	PASS
C15orf57	90416	broad.mit.edu	37	15	40855148	40855148	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:40855148A>G	uc001zmc.1	-	2	157	c.67T>C	c.(67-69)TGT>CGT	p.C23R	C15orf57_uc001zly.2_Missense_Mutation_p.C21R|C15orf57_uc001zma.1_Missense_Mutation_p.C32R|C15orf57_uc001zmb.1_Missense_Mutation_p.C23R|C15orf57_uc010bbr.2_Missense_Mutation_p.C21R	NM_001080792	NP_001074261	Q9BV29	CO057_HUMAN	coiled-coil domain containing 32 isoform a	23										ovary(1)	1						AGACAGGAACAAATTTCAGCC	0.468													57	104	---	---	---	---	PASS
ZFYVE19	84936	broad.mit.edu	37	15	41102149	41102149	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:41102149C>T	uc001zmt.1	+	4	1066	c.552C>T	c.(550-552)CTC>CTT	p.L184L	DNAJC17_uc001zms.1_5'Flank|DNAJC17_uc010bbz.1_5'Flank|DNAJC17_uc010bca.1_5'Flank|DNAJC17_uc010bcb.1_5'Flank|ZFYVE19_uc001zmu.1_Silent_p.L184L|ZFYVE19_uc001zmv.1_Silent_p.L9L|ZFYVE19_uc001zmw.1_Silent_p.L9L|ZFYVE19_uc001zmx.1_Silent_p.L9L|ZFYVE19_uc010bcc.1_Silent_p.L9L	NM_001077268	NP_001070736	Q96K21	ZFY19_HUMAN	zinc finger, FYVE domain containing 19	184							zinc ion binding				0		all_cancers(109;3.31e-18)|all_epithelial(112;2.33e-15)|Lung NSC(122;5.34e-11)|all_lung(180;1.33e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;2.76e-05)|COAD - Colon adenocarcinoma(120;0.151)|BRCA - Breast invasive adenocarcinoma(123;0.164)		TAGCACGACTCCGCCAGGAGA	0.602													21	28	---	---	---	---	PASS
ZFYVE19	84936	broad.mit.edu	37	15	41102150	41102150	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:41102150C>T	uc001zmt.1	+	4	1067	c.553C>T	c.(553-555)CGC>TGC	p.R185C	DNAJC17_uc001zms.1_5'Flank|DNAJC17_uc010bbz.1_5'Flank|DNAJC17_uc010bca.1_5'Flank|DNAJC17_uc010bcb.1_5'Flank|ZFYVE19_uc001zmu.1_Missense_Mutation_p.R185C|ZFYVE19_uc001zmv.1_Missense_Mutation_p.R10C|ZFYVE19_uc001zmw.1_Missense_Mutation_p.R10C|ZFYVE19_uc001zmx.1_Missense_Mutation_p.R10C|ZFYVE19_uc010bcc.1_Missense_Mutation_p.R10C	NM_001077268	NP_001070736	Q96K21	ZFY19_HUMAN	zinc finger, FYVE domain containing 19	185							zinc ion binding				0		all_cancers(109;3.31e-18)|all_epithelial(112;2.33e-15)|Lung NSC(122;5.34e-11)|all_lung(180;1.33e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;2.76e-05)|COAD - Colon adenocarcinoma(120;0.151)|BRCA - Breast invasive adenocarcinoma(123;0.164)		AGCACGACTCCGCCAGGAGAA	0.602													21	30	---	---	---	---	PASS
RPAP1	26015	broad.mit.edu	37	15	41817284	41817284	+	Silent	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:41817284C>A	uc001zod.2	-	15	2104	c.1980G>T	c.(1978-1980)CTG>CTT	p.L660L	RPAP1_uc001zoc.2_5'Flank	NM_015540	NP_056355	Q9BWH6	RPAP1_HUMAN	RNA polymerase II associated protein 1	660						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)		GGGGCAAGGCCAGTTCTTGGG	0.607													7	8	---	---	---	---	PASS
RPAP1	26015	broad.mit.edu	37	15	41820527	41820527	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:41820527C>T	uc001zod.2	-	10	1290	c.1166G>A	c.(1165-1167)GGG>GAG	p.G389E		NM_015540	NP_056355	Q9BWH6	RPAP1_HUMAN	RNA polymerase II associated protein 1	389						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)		TAGGGAATACCCCGCTCTCTG	0.547													4	6	---	---	---	---	PASS
TYRO3	7301	broad.mit.edu	37	15	41863783	41863783	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:41863783C>T	uc001zof.1	+							NM_006293	NP_006284	Q06418	TYRO3_HUMAN	TYRO3 protein tyrosine kinase precursor							integral to plasma membrane	ATP binding|receptor signaling protein tyrosine kinase activity|transmembrane receptor protein tyrosine kinase activity			ovary(3)|lung(2)|central_nervous_system(1)	6		all_cancers(109;7.33e-15)|all_epithelial(112;2.8e-12)|Lung NSC(122;3.48e-08)|all_lung(180;1.71e-07)|Melanoma(134;0.0262)		OV - Ovarian serous cystadenocarcinoma(18;3.31e-18)|GBM - Glioblastoma multiforme(113;9.31e-07)|BRCA - Breast invasive adenocarcinoma(123;0.117)		TCCCCATCCCCTTCTCCTAGC	0.517													16	20	---	---	---	---	PASS
MAPKBP1	23005	broad.mit.edu	37	15	42107463	42107463	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:42107463C>T	uc001zok.3	+	12	1481	c.1195C>T	c.(1195-1197)CCC>TCC	p.P399S	MAPKBP1_uc001zoj.3_Missense_Mutation_p.P393S|MAPKBP1_uc010bcj.2_5'UTR|MAPKBP1_uc010bci.2_Missense_Mutation_p.P393S|MAPKBP1_uc010udb.1_Intron|MAPKBP1_uc010bck.2_5'UTR|MAPKBP1_uc010bcl.2_5'UTR	NM_001128608	NP_001122080	O60336	MABP1_HUMAN	mitogen-activated protein kinase binding protein	399	WD 6.									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)		TCAGGTCTACCCCGAGGTGAA	0.562													10	50	---	---	---	---	PASS
MAPKBP1	23005	broad.mit.edu	37	15	42107464	42107464	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:42107464C>T	uc001zok.3	+	12	1482	c.1196C>T	c.(1195-1197)CCC>CTC	p.P399L	MAPKBP1_uc001zoj.3_Missense_Mutation_p.P393L|MAPKBP1_uc010bcj.2_5'UTR|MAPKBP1_uc010bci.2_Missense_Mutation_p.P393L|MAPKBP1_uc010udb.1_Intron|MAPKBP1_uc010bck.2_5'UTR|MAPKBP1_uc010bcl.2_5'UTR	NM_001128608	NP_001122080	O60336	MABP1_HUMAN	mitogen-activated protein kinase binding protein	399	WD 6.									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)		CAGGTCTACCCCGAGGTGAAG	0.567													11	49	---	---	---	---	PASS
PLA2G4E	123745	broad.mit.edu	37	15	42279560	42279560	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:42279560G>A	uc001zow.1	-	16	1758	c.1758C>T	c.(1756-1758)ATC>ATT	p.I586I	PLA2G4E_uc010udc.1_Silent_p.I58I|PLA2G4E_uc001zov.1_Silent_p.I239I	NM_001080490	NP_001073959	Q3MJ16	PA24E_HUMAN	phospholipase A2, group 4E	603	PLA2c.				phospholipid catabolic process	cytosol|lysosomal membrane	metal ion binding|phospholipase A2 activity				0		all_cancers(109;8.09e-13)|all_epithelial(112;2.03e-11)|Lung NSC(122;2.17e-07)|all_lung(180;8.79e-07)|Melanoma(134;0.0273)		OV - Ovarian serous cystadenocarcinoma(18;7.61e-18)|GBM - Glioblastoma multiforme(94;3.07e-06)		TTTCAGGCAGGATCGGCTCGT	0.557													8	23	---	---	---	---	PASS
PLA2G4F	255189	broad.mit.edu	37	15	42436707	42436707	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:42436707G>A	uc001zoz.2	-	17	1979	c.1916C>T	c.(1915-1917)ACC>ATC	p.T639I	PLA2G4F_uc010bcq.2_5'UTR|PLA2G4F_uc001zoy.2_Missense_Mutation_p.T271I|PLA2G4F_uc010bcr.2_Missense_Mutation_p.T390I|PLA2G4F_uc001zpa.2_Missense_Mutation_p.T390I|PLA2G4F_uc010bcs.2_Missense_Mutation_p.T426I	NM_213600	NP_998765	Q68DD2	PA24F_HUMAN	phospholipase A2, group IVF	639	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)		GAGACCCCGGGTGAAGTTAAA	0.622													17	22	---	---	---	---	PASS
TMEM87A	25963	broad.mit.edu	37	15	42553440	42553440	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:42553440G>A	uc010udd.1	-	5	572	c.413C>T	c.(412-414)TCT>TTT	p.S138F	TMEM87A_uc001zpf.3_Missense_Mutation_p.S77F|TMEM87A_uc010bcu.1_Missense_Mutation_p.S77F|TMEM87A_uc001zpg.2_Missense_Mutation_p.S138F	NM_015497	NP_056312	Q8NBN3	TM87A_HUMAN	transmembrane protein 87A isoform 1	138						integral to membrane				ovary(1)	1		all_cancers(109;4.28e-16)|all_epithelial(112;1.04e-14)|Lung NSC(122;5.01e-09)|all_lung(180;2.24e-08)|Melanoma(134;0.0574)|Colorectal(260;0.152)		GBM - Glioblastoma multiforme(94;1.03e-06)		AAAATCTCCAGAAAAGGTCTA	0.318													3	15	---	---	---	---	PASS
GANC	2595	broad.mit.edu	37	15	42580012	42580012	+	Missense_Mutation	SNP	G	T	T	rs149261745	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:42580012G>T	uc001zpi.2	+	4	639	c.325G>T	c.(325-327)GTA>TTA	p.V109L	GANC_uc001zph.2_Missense_Mutation_p.V109L|GANC_uc001zpj.1_5'UTR	NM_198141	NP_937784	Q8TET4	GANC_HUMAN	glucosidase, alpha; neutral C	109					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)		GCCAAGCACTGTAAGGTAAGC	0.363													17	41	---	---	---	---	PASS
CAPN3	825	broad.mit.edu	37	15	42652294	42652294	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:42652294C>T	uc001zpn.1	+	1	597	c.291C>T	c.(289-291)TTC>TTT	p.F97F	CAPN3_uc001zpk.1_Intron|CAPN3_uc001zpl.1_Intron|CAPN3_uc010udf.1_Intron|CAPN3_uc010udg.1_Intron|CAPN3_uc001zpo.1_Silent_p.F97F|CAPN3_uc001zpp.1_Silent_p.F97F	NM_000070	NP_000061	P20807	CAN3_HUMAN	calpain 3 isoform a	97	Calpain catalytic.		Missing (in LGMD2A).		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)		CCATCCAGTTCGTCTGGAAGA	0.527													53	132	---	---	---	---	PASS
ZFP106	64397	broad.mit.edu	37	15	42710095	42710095	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:42710095G>A	uc001zpw.2	-	18	5838	c.5503C>T	c.(5503-5505)CTG>TTG	p.L1835L	ZFP106_uc001zpu.2_Silent_p.L933L|ZFP106_uc001zpv.2_Silent_p.L1020L|ZFP106_uc001zpx.2_Silent_p.L1063L	NM_022473	NP_071918	Q9H2Y7	ZF106_HUMAN	zinc finger protein 106 homolog	1835	C2H2-type 2; atypical.					nucleolus	zinc ion binding			central_nervous_system(2)|ovary(1)	3		all_cancers(109;1.63e-12)|all_epithelial(112;3.97e-11)|Lung NSC(122;2.04e-07)|all_lung(180;8.31e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.6e-07)		TGGTCGGTCAGCAAGTGTTGT	0.443													14	29	---	---	---	---	PASS
ZFP106	64397	broad.mit.edu	37	15	42717087	42717087	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:42717087T>A	uc001zpw.2	-	13	5401	c.5066A>T	c.(5065-5067)AAT>ATT	p.N1689I	ZFP106_uc001zpu.2_Missense_Mutation_p.N787I|ZFP106_uc001zpv.2_Missense_Mutation_p.N874I|ZFP106_uc001zpx.2_Missense_Mutation_p.N917I	NM_022473	NP_071918	Q9H2Y7	ZF106_HUMAN	zinc finger protein 106 homolog	1689	WD 3.					nucleolus	zinc ion binding			central_nervous_system(2)|ovary(1)	3		all_cancers(109;1.63e-12)|all_epithelial(112;3.97e-11)|Lung NSC(122;2.04e-07)|all_lung(180;8.31e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.6e-07)		GAGCAGTCCATTCCGGGCATC	0.517													8	19	---	---	---	---	PASS
ZFP106	64397	broad.mit.edu	37	15	42734294	42734294	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:42734294G>A	uc001zpw.2	-	7	4006	c.3671C>T	c.(3670-3672)TCC>TTC	p.S1224F	ZFP106_uc001zpu.2_Missense_Mutation_p.S409F|ZFP106_uc001zpv.2_Missense_Mutation_p.S409F|ZFP106_uc001zpx.2_Missense_Mutation_p.S452F	NM_022473	NP_071918	Q9H2Y7	ZF106_HUMAN	zinc finger protein 106 homolog	1224						nucleolus	zinc ion binding			central_nervous_system(2)|ovary(1)	3		all_cancers(109;1.63e-12)|all_epithelial(112;3.97e-11)|Lung NSC(122;2.04e-07)|all_lung(180;8.31e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.6e-07)		TAATTCCTTGGACACATTGCA	0.443													15	44	---	---	---	---	PASS
ZFP106	64397	broad.mit.edu	37	15	42743038	42743038	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:42743038G>A	uc001zpw.2	-	2	1698	c.1363C>T	c.(1363-1365)CTT>TTT	p.L455F	ZFP106_uc001zpu.2_5'Flank|ZFP106_uc001zpv.2_Intron|ZFP106_uc001zpx.2_Intron|ZFP106_uc010udh.1_Missense_Mutation_p.L238F|ZFP106_uc001zpy.1_Missense_Mutation_p.L478F	NM_022473	NP_071918	Q9H2Y7	ZF106_HUMAN	zinc finger protein 106 homolog	455						nucleolus	zinc ion binding			central_nervous_system(2)|ovary(1)	3		all_cancers(109;1.63e-12)|all_epithelial(112;3.97e-11)|Lung NSC(122;2.04e-07)|all_lung(180;8.31e-07)|Melanoma(134;0.091)		GBM - Glioblastoma multiforme(94;8.6e-07)		GGACATGGAAGGAGTGGGGAT	0.418													38	67	---	---	---	---	PASS
TGM7	116179	broad.mit.edu	37	15	43594442	43594442	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:43594442G>A	uc001zrf.1	-	1	12	c.7C>T	c.(7-9)CAG>TAG	p.Q3*		NM_052955	NP_443187	Q96PF1	TGM7_HUMAN	transglutaminase 7	3					peptide cross-linking		acyltransferase activity|metal ion binding|protein-glutamine gamma-glutamyltransferase activity			ovary(2)	2		all_cancers(109;2.12e-14)|all_epithelial(112;1.99e-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;9.14e-07)	L-Glutamine(DB00130)	TACTCACCCTGATCCATCTCC	0.507													17	34	---	---	---	---	PASS
MAP1A	4130	broad.mit.edu	37	15	43817847	43817847	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:43817847G>A	uc001zrt.2	+	4	4643	c.4176G>A	c.(4174-4176)GAG>GAA	p.E1392E		NM_002373	NP_002364	P78559	MAP1A_HUMAN	microtubule-associated protein 1A	1392						cytoplasm|microtubule|microtubule associated complex	protein binding|structural molecule activity			ovary(3)|breast(3)|pancreas(2)|skin(1)	9		all_cancers(109;1.03e-14)|all_epithelial(112;2.23e-12)|Lung NSC(122;2.76e-08)|all_lung(180;3.1e-07)|Melanoma(134;0.0476)|Colorectal(260;0.215)		GBM - Glioblastoma multiforme(94;3.05e-06)	Estramustine(DB01196)	AGAAAGATGAGGCTCTGCATG	0.453													36	68	---	---	---	---	PASS
STRC	161497	broad.mit.edu	37	15	43895470	43895470	+	Silent	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:43895470T>C	uc001zsf.2	-	23	4593	c.4515A>G	c.(4513-4515)GAA>GAG	p.E1505E	STRC_uc010bdl.2_Silent_p.E732E|STRC_uc001zse.2_Silent_p.E23E	NM_153700	NP_714544	Q7RTU9	STRC_HUMAN	stereocilin precursor	1505					sensory perception of sound	cell surface					0		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)		CTGCCCGCAGTTCCTCAGGCC	0.542													7	44	---	---	---	---	PASS
SPG11	80208	broad.mit.edu	37	15	44856758	44856758	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:44856758C>T	uc001ztx.2	-	39	7169	c.7138G>A	c.(7138-7140)GAG>AAG	p.E2380K	SPG11_uc010bdw.2_Missense_Mutation_p.E510K|SPG11_uc010ueh.1_Missense_Mutation_p.E2267K|SPG11_uc010uei.1_Intron	NM_025137	NP_079413	Q96JI7	SPTCS_HUMAN	spatacsin isoform 1	2380	Extracellular (Potential).				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)		TTGGAAATCTCTTCAAATATA	0.338													16	35	---	---	---	---	PASS
SPG11	80208	broad.mit.edu	37	15	44892803	44892803	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:44892803G>A	uc001ztx.2	-	21	3579	c.3548C>T	c.(3547-3549)TCT>TTT	p.S1183F	SPG11_uc010ueh.1_Missense_Mutation_p.S1183F|SPG11_uc010uei.1_Missense_Mutation_p.S1183F|SPG11_uc001zty.1_5'UTR	NM_025137	NP_079413	Q96JI7	SPTCS_HUMAN	spatacsin isoform 1	1183	Extracellular (Potential).				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)		GTCAGGGCTAGAGAAATGTGG	0.358													28	48	---	---	---	---	PASS
TRIM69	140691	broad.mit.edu	37	15	45052027	45052027	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:45052027C>T	uc001zuf.2	+	7	1813	c.918C>T	c.(916-918)ATC>ATT	p.I306I	TRIM69_uc001zui.1_Silent_p.I102I|TRIM69_uc010bdy.1_Silent_p.I85I|TRIM69_uc001zug.1_Silent_p.I306I|TRIM69_uc001zuh.1_Silent_p.I147I	NM_182985	NP_892030	Q86WT6	TRI69_HUMAN	tripartite motif-containing 69 isoform a	306	B30.2/SPRY.				apoptosis	nuclear speck	zinc ion binding				0		all_cancers(109;2.47e-13)|all_epithelial(112;2.84e-11)|Lung NSC(122;2.23e-07)|all_lung(180;1.81e-06)|Melanoma(134;0.0122)		all cancers(107;5.5e-19)|GBM - Glioblastoma multiforme(94;1.07e-06)|Colorectal(105;0.138)|COAD - Colon adenocarcinoma(120;0.141)		AAGGTCCTATCCAGTACATGG	0.478													20	30	---	---	---	---	PASS
SORD	6652	broad.mit.edu	37	15	45332620	45332620	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:45332620C>T	uc001zul.3	+	2	222	c.81C>T	c.(79-81)ATC>ATT	p.I27I	SORD_uc010uel.1_RNA|SORD_uc001zum.3_Silent_p.I27I|SORD_uc010bdz.2_5'UTR	NM_003104	NP_003095	Q00796	DHSO_HUMAN	sorbitol dehydrogenase	27					fructose biosynthetic process|glucose metabolic process|L-xylitol catabolic process|sorbitol catabolic process|sperm motility	cilium|extracellular space|flagellum|membrane fraction|mitochondrial membrane|soluble fraction	L-iditol 2-dehydrogenase activity|NAD binding|sugar binding|zinc ion binding				0		all_cancers(109;3.43e-12)|all_epithelial(112;2.33e-10)|Lung NSC(122;6.01e-07)|all_lung(180;4.38e-06)|Melanoma(134;0.0122)		all cancers(107;1.6e-18)|GBM - Glioblastoma multiforme(94;4.95e-07)|COAD - Colon adenocarcinoma(120;0.0704)|Colorectal(133;0.0706)	NADH(DB00157)	ACTATCCTATCCCTGAACCAG	0.323													6	17	---	---	---	---	PASS
SORD	6652	broad.mit.edu	37	15	45353282	45353282	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:45353282G>A	uc001zul.3	+	4	424	c.283G>A	c.(283-285)GAG>AAG	p.E95K	SORD_uc010uel.1_Intron|SORD_uc001zum.3_Missense_Mutation_p.E95K|SORD_uc010bdz.2_Missense_Mutation_p.E16K	NM_003104	NP_003095	Q00796	DHSO_HUMAN	sorbitol dehydrogenase	95					fructose biosynthetic process|glucose metabolic process|L-xylitol catabolic process|sorbitol catabolic process|sperm motility	cilium|extracellular space|flagellum|membrane fraction|mitochondrial membrane|soluble fraction	L-iditol 2-dehydrogenase activity|NAD binding|sugar binding|zinc ion binding				0		all_cancers(109;3.43e-12)|all_epithelial(112;2.33e-10)|Lung NSC(122;6.01e-07)|all_lung(180;4.38e-06)|Melanoma(134;0.0122)		all cancers(107;1.6e-18)|GBM - Glioblastoma multiforme(94;4.95e-07)|COAD - Colon adenocarcinoma(120;0.0704)|Colorectal(133;0.0706)	NADH(DB00157)	TGTTGCCATCGAGCCTGGTGC	0.537													16	32	---	---	---	---	PASS
DUOX2	50506	broad.mit.edu	37	15	45390260	45390260	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:45390260G>A	uc010bea.2	-						DUOX2_uc001zun.2_Intron	NM_014080	NP_054799	Q9NRD8	DUOX2_HUMAN	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)		CTTGGACCTGGGGGGCAAAGG	0.582													12	29	---	---	---	---	PASS
SEMA6D	80031	broad.mit.edu	37	15	48063453	48063453	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:48063453G>A	uc010bek.2	+	19	3053	c.2693G>A	c.(2692-2694)GGA>GAA	p.G898E	SEMA6D_uc001zvw.2_Missense_Mutation_p.G836E|SEMA6D_uc001zvy.2_Missense_Mutation_p.G898E|SEMA6D_uc001zvz.2_Missense_Mutation_p.G842E|SEMA6D_uc001zwa.2_3'UTR|SEMA6D_uc001zwb.2_Missense_Mutation_p.G836E|SEMA6D_uc001zwc.2_Missense_Mutation_p.G823E	NM_153618	NP_705871	Q8NFY4	SEM6D_HUMAN	semaphorin 6D isoform 4 precursor	898	Cytoplasmic (Potential).				axon guidance	cytoplasm|integral to membrane|plasma membrane	receptor activity			skin(3)|breast(1)	4		all_lung(180;0.000635)|Myeloproliferative disorder(241;0.116)|Melanoma(134;0.18)		all cancers(107;1.2e-11)|GBM - Glioblastoma multiforme(94;1.2e-06)		GCCATCATGGGAGACATCCAG	0.493													41	70	---	---	---	---	PASS
SLC24A5	283652	broad.mit.edu	37	15	48426492	48426492	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:48426492C>T	uc001zwe.2	+	3	412	c.339C>T	c.(337-339)TTC>TTT	p.F113F	SLC24A5_uc010bel.2_Silent_p.F53F	NM_205850	NP_995322	Q71RS6	NCKX5_HUMAN	solute carrier family 24, member 5 precursor	113	Helical; Name=2; (Potential).				response to stimulus	integral to membrane|melanosome|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity				0		all_lung(180;0.00217)		all cancers(107;3.29e-10)|GBM - Glioblastoma multiforme(94;7.32e-07)		GCACAACTTTCATGGCAGCGG	0.373													13	51	---	---	---	---	PASS
MYEF2	50804	broad.mit.edu	37	15	48458162	48458162	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:48458162C>T	uc001zwi.3	-	5	617	c.493G>A	c.(493-495)GAT>AAT	p.D165N	MYEF2_uc001zwj.3_Missense_Mutation_p.D165N|MYEF2_uc001zwl.2_Missense_Mutation_p.D5N	NM_016132	NP_057216	Q9P2K5	MYEF2_HUMAN	myelin expression factor 2	165	RRM 1.				transcription, DNA-dependent	Golgi apparatus|nucleus	DNA binding|nucleotide binding|RNA binding	p.D165H(1)		lung(2)|ovary(1)	3		all_lung(180;0.00217)		all cancers(107;3.73e-10)|GBM - Glioblastoma multiforme(94;7.81e-07)		CCACTAAGATCATATTTGTTC	0.279													18	33	---	---	---	---	PASS
FBN1	2200	broad.mit.edu	37	15	48787353	48787353	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:48787353C>A	uc001zwx.1	-	22	2972	c.2644G>T	c.(2644-2646)GCG>TCG	p.A882S		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	882	TB 4.				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)		CTTCCCCACGCAGCACCGAGG	0.527													12	17	---	---	---	---	PASS
FBN1	2200	broad.mit.edu	37	15	48903022	48903022	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:48903022G>A	uc001zwx.1	-	4	577	c.249C>T	c.(247-249)CCC>CCT	p.P83P		NM_000138	NP_000129	P35555	FBN1_HUMAN	fibrillin 1 precursor	83	EGF-like 1.				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)		GCCGGCAAATGGCTGTGAATA	0.413													5	21	---	---	---	---	PASS
FGF7	2252	broad.mit.edu	37	15	49716680	49716680	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:49716680G>A	uc001zxn.2	+	2	715	c.186G>A	c.(184-186)GGG>GGA	p.G62G	C15orf33_uc001zxl.2_Intron|C15orf33_uc001zxm.2_Intron	NM_002009	NP_002000	P21781	FGF7_HUMAN	fibroblast growth factor 7 precursor	62					actin cytoskeleton reorganization|fibroblast growth factor receptor signaling pathway|insulin receptor signaling pathway|mesenchymal cell proliferation|positive regulation of cell division|positive regulation of epithelial cell proliferation involved in lung morphogenesis|positive regulation of keratinocyte migration|positive regulation of keratinocyte proliferation|positive regulation of peptidyl-tyrosine phosphorylation|protein localization at cell surface|secretion by lung epithelial cell involved in lung growth		chemoattractant activity|growth factor activity				0		all_lung(180;0.00391)		all cancers(107;3.61e-08)|GBM - Glioblastoma multiforme(94;4.06e-05)	Palifermin(DB00039)	TGGAAGGAGGGGATATAAGAG	0.428													15	45	---	---	---	---	PASS
C15orf33	196951	broad.mit.edu	37	15	49882084	49882084	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:49882084G>A	uc001zxl.2	-	4	520	c.226C>T	c.(226-228)CGA>TGA	p.R76*	C15orf33_uc001zxm.2_Nonsense_Mutation_p.R76*	NM_152647	NP_689860	Q96M60	CO033_HUMAN	hypothetical protein LOC196951	76										ovary(1)	1		all_lung(180;0.00187)		all cancers(107;3.45e-08)|GBM - Glioblastoma multiforme(94;0.000124)		TCAAATATTCGAGGAACATTT	0.299													5	23	---	---	---	---	PASS
USP8	9101	broad.mit.edu	37	15	50769124	50769124	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:50769124C>T	uc001zym.3	+	10	1428	c.928C>T	c.(928-930)CAG>TAG	p.Q310*	USP8_uc001zyk.1_Silent_p.P9P|USP8_uc001zyl.3_Nonsense_Mutation_p.Q310*|USP8_uc001zyn.3_Nonsense_Mutation_p.Q310*|USP8_uc010ufh.1_Nonsense_Mutation_p.Q233*|USP8_uc010bev.1_Intron	NM_001128611	NP_001122083	P40818	UBP8_HUMAN	ubiquitin specific peptidase 8	310	Rhodanese.				cell cycle|cell proliferation|endosome organization|protein K48-linked deubiquitination|protein K63-linked deubiquitination|ubiquitin-dependent protein catabolic process	cytosol|early endosome|extrinsic to plasma membrane|nucleus	cysteine-type endopeptidase activity|SH3 domain binding|ubiquitin thiolesterase activity|ubiquitin-specific protease activity			lung(1)|central_nervous_system(1)	2				all cancers(107;0.000225)|GBM - Glioblastoma multiforme(94;0.000771)		TTGTTATCCCCAGTATACAAC	0.393													29	42	---	---	---	---	PASS
GLDN	342035	broad.mit.edu	37	15	51687050	51687050	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:51687050G>A	uc002aba.2	+	5	729	c.560G>A	c.(559-561)GGA>GAA	p.G187E	GLDN_uc002abb.2_Missense_Mutation_p.G63E	NM_181789	NP_861454	Q6ZMI3	GLDN_HUMAN	gliomedin	187	Extracellular (Potential).|Collagen-like 1.				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)		GGAGCTGCAGGAAATCCAGGG	0.488													5	19	---	---	---	---	PASS
MYO5C	55930	broad.mit.edu	37	15	52497304	52497304	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									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)		GCTTCAGGCCGGAAATGCCCT	0.597													15	31	---	---	---	---	PASS
MYO5A	4644	broad.mit.edu	37	15	52700311	52700311	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:52700311G>A	uc002aby.2	-	7	1027	c.783C>T	c.(781-783)ATC>ATT	p.I261I	MYO5A_uc002abx.3_Silent_p.I261I|MYO5A_uc010uge.1_Silent_p.I130I	NM_000259	NP_000250	Q9Y4I1	MYO5A_HUMAN	myosin VA isoform 1	261	Myosin head-like.				actin filament-based movement|transport	cytoplasm|growth cone|myosin complex|ruffle	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(3)|central_nervous_system(1)	4				all cancers(107;0.0085)|Colorectal(133;0.077)|READ - Rectum adenocarcinoma(133;0.196)		GCTGATAGAAGATATGATAGT	0.299													19	43	---	---	---	---	PASS
UNC13C	440279	broad.mit.edu	37	15	54305353	54305353	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:54305353G>A	uc002ack.2	+	1	253	c.253G>A	c.(253-255)GAG>AAG	p.E85K		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	85					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)		GGCCAGTAAAGAGTTTTCCCT	0.403													16	30	---	---	---	---	PASS
UNC13C	440279	broad.mit.edu	37	15	54307087	54307087	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:54307087G>A	uc002ack.2	+	1	1987	c.1987G>A	c.(1987-1989)GGA>AGA	p.G663R		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	663					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)		ATGGAATCAAGGAGCTGATTT	0.418													31	41	---	---	---	---	PASS
UNC13C	440279	broad.mit.edu	37	15	54307123	54307123	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:54307123G>A	uc002ack.2	+	1	2023	c.2023G>A	c.(2023-2025)GGT>AGT	p.G675S		NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	675					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)		CACCCAGGAAGGTTTTGATTA	0.393													15	49	---	---	---	---	PASS
UNC13C	440279	broad.mit.edu	37	15	54630615	54630615	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:54630615G>A	uc002ack.2	+	15	4641	c.4641G>A	c.(4639-4641)AGG>AGA	p.R1547R	UNC13C_uc002acl.2_Silent_p.R377R	NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	1547					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)		ACTGTGTAAGGGCTTGCCTGG	0.423													36	75	---	---	---	---	PASS
UNC13C	440279	broad.mit.edu	37	15	54914535	54914535	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:54914535C>T	uc002ack.2	+	29	6117	c.6117C>T	c.(6115-6117)TCC>TCT	p.S2039S	UNC13C_uc002acm.2_5'UTR	NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	unc-13 homolog C	2039					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)		GTCGTTCCTCCAAAGATGCCG	0.408													19	56	---	---	---	---	PASS
ZNF280D	54816	broad.mit.edu	37	15	56958614	56958614	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:56958614G>T	uc002adu.2	-	16	2190	c.1973C>A	c.(1972-1974)GCC>GAC	p.A658D	ZNF280D_uc002adv.2_Missense_Mutation_p.A645D|ZNF280D_uc010bfq.2_Missense_Mutation_p.A658D|ZNF280D_uc002adw.1_Missense_Mutation_p.A686D|ZNF280D_uc010bfr.1_RNA|ZNF280D_uc010bfp.2_RNA	NM_017661	NP_060131	Q6N043	Z280D_HUMAN	suppressor of hairy wing homolog 4 isoform 1	658					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)|skin(1)	3				all cancers(107;0.0399)|GBM - Glioblastoma multiforme(80;0.0787)		ATTTACATAGGCTTTGCTACA	0.323													4	51	---	---	---	---	PASS
CGNL1	84952	broad.mit.edu	37	15	57730805	57730805	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:57730805C>T	uc002aeg.2	+	2	684	c.608C>T	c.(607-609)CCC>CTC	p.P203L	CGNL1_uc010bfw.2_Missense_Mutation_p.P203L	NM_032866	NP_116255	Q0VF96	CGNL1_HUMAN	cingulin-like 1	203	Head.					myosin complex|tight junction	motor activity			skin(6)|ovary(4)|central_nervous_system(1)	11				all cancers(107;0.121)|GBM - Glioblastoma multiforme(80;0.186)		CCTACCAGTCCCTCCTTGGAA	0.478													49	115	---	---	---	---	PASS
AQP9	366	broad.mit.edu	37	15	58467217	58467217	+	Silent	SNP	G	A	A	rs140673133	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:58467217G>A	uc002aez.2	+	4	834	c.477G>A	c.(475-477)GCG>GCA	p.A159A	ALDH1A2_uc010ugw.1_Intron|AQP9_uc010ugx.1_Silent_p.A94A	NM_020980	NP_066190	O43315	AQP9_HUMAN	aquaporin 9	159	Helical; (Potential).				cellular response to cAMP|excretion|immune response|metabolic process|response to mercury ion|response to osmotic stress|water homeostasis	integral to plasma membrane|intracellular membrane-bounded organelle	amine transmembrane transporter activity|carboxylic acid transmembrane transporter activity|glycerol channel activity|porin activity|purine base transmembrane transporter activity|pyrimidine base transmembrane transporter activity|water channel activity			ovary(1)	1				GBM - Glioblastoma multiforme(80;0.16)		TATCTCTGGCGAACGCATTTG	0.418													13	38	---	---	---	---	PASS
RNF111	54778	broad.mit.edu	37	15	59373363	59373363	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:59373363C>T	uc002afv.2	+	8	2456	c.2177C>T	c.(2176-2178)CCT>CTT	p.P726L	RNF111_uc002afs.2_Missense_Mutation_p.P726L|RNF111_uc002aft.2_Missense_Mutation_p.P726L|RNF111_uc002afu.2_Missense_Mutation_p.P725L|RNF111_uc002afw.2_Missense_Mutation_p.P726L|RNF111_uc002afx.2_Missense_Mutation_p.P252L	NM_017610	NP_060080	Q6ZNA4	RN111_HUMAN	ring finger protein 111	726	Pro-rich.				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)		CATCTTCCTCCTACACACCAG	0.507													17	37	---	---	---	---	PASS
LDHAL6B	92483	broad.mit.edu	37	15	59499206	59499206	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:59499206T>A	uc002agb.2	+	1	165	c.67T>A	c.(67-69)TGC>AGC	p.C23S	MYO1E_uc002aga.2_Intron	NM_033195	NP_149972	Q9BYZ2	LDH6B_HUMAN	lactate dehydrogenase A-like 6B	23					glycolysis	cytoplasm	L-lactate dehydrogenase activity|protein binding				0					NADH(DB00157)	GAATTTCCTATGCCTGGGGAT	0.597													6	17	---	---	---	---	PASS
VPS13C	54832	broad.mit.edu	37	15	62255038	62255038	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:62255038G>A	uc002agz.2	-	33	3419	c.3345C>T	c.(3343-3345)TCC>TCT	p.S1115S	VPS13C_uc002aha.2_Silent_p.S1072S|VPS13C_uc002ahb.1_Silent_p.S1115S|VPS13C_uc002ahc.1_Silent_p.S1072S	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	1115					protein localization					ovary(2)	2						GGAGAGAAAGGGAGGAATCCA	0.338													10	23	---	---	---	---	PASS
VPS13C	54832	broad.mit.edu	37	15	62255039	62255039	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:62255039G>A	uc002agz.2	-	33	3418	c.3344C>T	c.(3343-3345)TCC>TTC	p.S1115F	VPS13C_uc002aha.2_Missense_Mutation_p.S1072F|VPS13C_uc002ahb.1_Missense_Mutation_p.S1115F|VPS13C_uc002ahc.1_Missense_Mutation_p.S1072F	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	1115					protein localization					ovary(2)	2						GAGAGAAAGGGAGGAATCCAG	0.338													10	23	---	---	---	---	PASS
VPS13C	54832	broad.mit.edu	37	15	62266527	62266527	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:62266527G>A	uc002agz.2	-	25	2572	c.2498C>T	c.(2497-2499)CCT>CTT	p.P833L	VPS13C_uc002aha.2_Missense_Mutation_p.P790L|VPS13C_uc002ahb.1_Missense_Mutation_p.P833L|VPS13C_uc002ahc.1_Missense_Mutation_p.P790L	NM_020821	NP_065872	Q709C8	VP13C_HUMAN	vacuolar protein sorting 13C protein isoform 2A	833					protein localization					ovary(2)	2						CTGTGGCAAAGGTATACTGTT	0.343													17	36	---	---	---	---	PASS
TLN2	83660	broad.mit.edu	37	15	63044536	63044536	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:63044536G>A	uc002alb.3	+	32	4242	c.4242G>A	c.(4240-4242)CAG>CAA	p.Q1414Q	TLN2_uc002alc.3_5'UTR	NM_015059	NP_055874	Q9Y4G6	TLN2_HUMAN	talin 2	1414					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						GGATTTCACAGAATGCCAAGA	0.547													25	69	---	---	---	---	PASS
HERC1	8925	broad.mit.edu	37	15	63958598	63958598	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:63958598C>A	uc002amp.2	-	41	8428	c.8280G>T	c.(8278-8280)ATG>ATT	p.M2760I		NM_003922	NP_003913	Q15751	HERC1_HUMAN	hect domain and RCC1-like domain 1	2760					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						GAGAGAACCCCATTTCCAGCA	0.423													5	84	---	---	---	---	PASS
FAM96A	84191	broad.mit.edu	37	15	64365189	64365189	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:64365189C>A	uc002amt.1	-	5	664	c.424G>T	c.(424-426)GCA>TCA	p.A142S	FAM96A_uc002amu.1_3'UTR	NM_032231	NP_115607	Q9H5X1	FA96A_HUMAN	family with sequence similarity 96, member A	142					chromosome segregation						0						TTTTCCATTGCAGCTGCCACT	0.408													8	36	---	---	---	---	PASS
CSNK1G1	53944	broad.mit.edu	37	15	64497066	64497066	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:64497066G>A	uc002anf.2	-	8	1328	c.848C>T	c.(847-849)CCA>CTA	p.P283L	CSNK1G1_uc002ane.2_RNA|CSNK1G1_uc002ang.1_Missense_Mutation_p.P283L|CSNK1G1_uc002anh.1_Missense_Mutation_p.P283L|CSNK1G1_uc002anj.2_Missense_Mutation_p.P265L	NM_022048	NP_071331	Q9HCP0	KC1G1_HUMAN	casein kinase 1, gamma 1	283	Protein kinase.				Wnt receptor signaling pathway	cytoplasm	ATP binding|protein serine/threonine kinase activity				0						CATCCCACCTGGAAAGTTCTC	0.408													8	29	---	---	---	---	PASS
PIF1	80119	broad.mit.edu	37	15	65110521	65110521	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:65110521G>A	uc002ant.2	-	10	1529	c.1463C>T	c.(1462-1464)TCG>TTG	p.S488L	PIF1_uc002anr.2_Missense_Mutation_p.S36L|PIF1_uc002ans.2_Missense_Mutation_p.S179L|PIF1_uc010uiq.1_Missense_Mutation_p.S488L	NM_025049	NP_079325	Q9H611	PIF1_HUMAN	DNA helicase homolog PIF1	488	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						CCGAGACACCGATAAGTTTTT	0.547													8	23	---	---	---	---	PASS
PLEKHO2	80301	broad.mit.edu	37	15	65157114	65157114	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:65157114C>T	uc002anv.2	+	6	634	c.500C>T	c.(499-501)TCT>TTT	p.S167F	PLEKHO2_uc010bgz.2_Intron|PLEKHO2_uc002anw.2_Missense_Mutation_p.S117F	NM_025201	NP_079477	Q8TD55	PKHO2_HUMAN	pleckstrin homology domain containing, family O	167										ovary(1)|lung(1)	2						AGTGCAGCTTCTGACGGTCTT	0.582													15	60	---	---	---	---	PASS
CLPX	10845	broad.mit.edu	37	15	65458972	65458972	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:65458972C>T	uc002aom.2	-	4	582	c.510G>A	c.(508-510)AAG>AAA	p.K170K	CLPX_uc010uiu.1_RNA|CLPX_uc010bhg.1_Silent_p.K170K	NM_006660	NP_006651	O76031	CLPX_HUMAN	ClpX caseinolytic protease X homolog precursor	170					protein folding|proteolysis involved in cellular protein catabolic process	mitochondrial endopeptidase Clp complex|mitochondrial inner membrane|mitochondrial nucleoid	ATP binding|ATPase activity|metal ion binding|peptidase activator activity|unfolded protein binding				0						CTTATACCTTCTTAGGGGGAG	0.373													18	66	---	---	---	---	PASS
IGDCC3	9543	broad.mit.edu	37	15	65621935	65621935	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:65621935C>T	uc002aos.2	-	13	2250	c.1998G>A	c.(1996-1998)AGG>AGA	p.R666R	IGDCC3_uc002aor.1_5'UTR	NM_004884	NP_004875	Q8IVU1	IGDC3_HUMAN	putative neuronal cell adhesion molecule	666	Cytoplasmic (Potential).									ovary(3)	3						ACAGGAGGACCCTAAGGGTTA	0.597													14	19	---	---	---	---	PASS
IGDCC4	57722	broad.mit.edu	37	15	65680880	65680880	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:65680880G>A	uc002aou.1	-	16	2962	c.2752C>T	c.(2752-2754)CGG>TGG	p.R918W	IGDCC4_uc002aot.1_Missense_Mutation_p.R506W	NM_020962	NP_066013	Q8TDY8	IGDC4_HUMAN	immunoglobulin superfamily, DCC subclass, member	918	Extracellular (Potential).|Fibronectin type-III 5.					integral to membrane|plasma membrane				ovary(1)|pancreas(1)|skin(1)	3						AAGAAGTACCGAGTGTCGCTC	0.612													31	68	---	---	---	---	PASS
C15orf44	81556	broad.mit.edu	37	15	65874287	65874287	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:65874287C>T	uc002apd.2	-						C15orf44_uc010uix.1_Intron|C15orf44_uc010uiz.1_Intron|C15orf44_uc010uja.1_Intron|C15orf44_uc010ujb.1_Intron|C15orf44_uc002ape.3_Intron|C15orf44_uc010uiy.1_Intron	NM_030800	NP_110427	Q96SY0	CO044_HUMAN	hypothetical protein LOC81556 isoform 2											ovary(1)	1						TTCTGTCTGTCTCACCTTATA	0.373													11	35	---	---	---	---	PASS
MEGF11	84465	broad.mit.edu	37	15	66223281	66223281	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:66223281C>T	uc002apm.2	-	11	1429	c.1288G>A	c.(1288-1290)GGA>AGA	p.G430R	MEGF11_uc002apl.2_Missense_Mutation_p.G355R|MEGF11_uc002apn.1_Missense_Mutation_p.G430R	NM_032445	NP_115821	A6BM72	MEG11_HUMAN	multiple EGF-like-domains 11 precursor	430	EGF-like 7.					basolateral plasma membrane|integral to membrane				pancreas(1)	1						CAGACCTCTCCCTGGAAAGGG	0.428													9	14	---	---	---	---	PASS
MEGF11	84465	broad.mit.edu	37	15	66416238	66416238	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:66416238G>A	uc002apm.2	-	3	340	c.199C>T	c.(199-201)CGG>TGG	p.R67W	MEGF11_uc002apl.2_Silent_p.T25T|MEGF11_uc002apn.1_Missense_Mutation_p.R67W	NM_032445	NP_115821	A6BM72	MEG11_HUMAN	multiple EGF-like-domains 11 precursor	67	EMI.					basolateral plasma membrane|integral to membrane				pancreas(1)	1						GGTACTCACCGGTGCCTGGTG	0.527													24	37	---	---	---	---	PASS
LCTL	197021	broad.mit.edu	37	15	66845452	66845452	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:66845452G>A	uc002aqc.2	-	9	1199	c.1067C>T	c.(1066-1068)TCC>TTC	p.S356F	LCTL_uc002aqd.3_Missense_Mutation_p.S183F|LCTL_uc010bhw.2_Missense_Mutation_p.S54F	NM_207338	NP_997221	Q6UWM7	LCTL_HUMAN	lactase-like precursor	356	Extracellular (Potential).				carbohydrate metabolic process	endoplasmic reticulum membrane|integral to membrane	cation binding|hydrolase activity, hydrolyzing O-glycosyl compounds			ovary(2)	2						CCCCTGGCGGGAGGGGTAGTT	0.502													24	58	---	---	---	---	PASS
IQCH	64799	broad.mit.edu	37	15	67571722	67571722	+	Intron	SNP	T	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:67571722T>G	uc002aqo.1	+						IQCH_uc010ujv.1_Intron|IQCH_uc002aqn.1_Intron|IQCH_uc002aqq.1_Intron|IQCH_uc002aqp.1_Intron|IQCH_uc002aqm.2_Intron	NM_001031715	NP_001026885	Q86VS3	IQCH_HUMAN	IQ motif containing H isoform 1											skin(3)|ovary(1)	4				Colorectal(3;0.0856)		ATTCCATTTCTTCTTACTTAG	0.289													4	10	---	---	---	---	PASS
ITGA11	22801	broad.mit.edu	37	15	68617468	68617468	+	Splice_Site	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:68617468C>T	uc002ari.2	-	18	2409	c.2322_splice	c.e18+1	p.S774_splice	ITGA11_uc010bib.2_Splice_Site_p.S774_splice	NM_001004439	NP_001004439	Q9UKX5	ITA11_HUMAN	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)	CCGAGATGTACCGAGACTCTG	0.622													11	16	---	---	---	---	PASS
ITGA11	22801	broad.mit.edu	37	15	68643128	68643128	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:68643128G>A	uc002ari.2	-						ITGA11_uc010bib.2_Intron	NM_001004439	NP_001004439	Q9UKX5	ITA11_HUMAN	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)	GACCTGCCAGGGAACAGGGGC	0.552													7	39	---	---	---	---	PASS
NOX5	79400	broad.mit.edu	37	15	69339854	69339854	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:69339854C>T	uc002ars.1	+	12	1814	c.1794C>T	c.(1792-1794)TCC>TCT	p.S598S	NOX5_uc002arp.1_Silent_p.S580S|NOX5_uc002arq.1_Silent_p.S552S|NOX5_uc010bid.1_Silent_p.S563S|NOX5_uc002arr.1_Silent_p.S570S|NOX5_uc010bie.1_Silent_p.S398S|NOX5_uc010bif.1_RNA	NM_024505	NP_078781	Q96PH1	NOX5_HUMAN	NADPH oxidase, EF-hand calcium binding domain 5	598	Helical; (Potential).				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						CCTTTGCTTCCATTCTGCAGA	0.527													12	18	---	---	---	---	PASS
NOX5	79400	broad.mit.edu	37	15	69341321	69341321	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:69341321G>A	uc002ars.1	+	14	1942	c.1922G>A	c.(1921-1923)AGA>AAA	p.R641K	NOX5_uc002arp.1_Missense_Mutation_p.R623K|NOX5_uc002arq.1_Missense_Mutation_p.R595K|NOX5_uc010bid.1_Missense_Mutation_p.R606K|NOX5_uc002arr.1_Missense_Mutation_p.R613K|NOX5_uc010bie.1_Missense_Mutation_p.R441K|NOX5_uc010bif.1_RNA	NM_024505	NP_078781	Q96PH1	NOX5_HUMAN	NADPH oxidase, EF-hand calcium binding domain 5	641	Extracellular (Potential).				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	p.D641H(1)		breast(1)|pancreas(1)	2						TGGATCAACAGAGACCAGCGG	0.502													6	18	---	---	---	---	PASS
THSD4	79875	broad.mit.edu	37	15	72023565	72023565	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:72023565C>T	uc002atb.1	+						THSD4_uc002atd.1_3'UTR|THSD4_uc010ukg.1_Intron|THSD4_uc002ate.2_Intron	NM_024817	NP_079093	Q6ZMP0	THSD4_HUMAN	thrombospondin, type I, domain containing 4							proteinaceous extracellular matrix	metalloendopeptidase activity			ovary(2)	2						AGGTAGAATCCCTTGTCTTGT	0.552											OREG0023247	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	5	12	---	---	---	---	PASS
TMEM202	338949	broad.mit.edu	37	15	72700100	72700100	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:72700100C>T	uc002auq.2	+	5	688	c.688C>T	c.(688-690)CCA>TCA	p.P230S	TMEM202_uc002aur.2_RNA	NM_001080462	NP_001073931	A6NGA9	TM202_HUMAN	transmembrane protein 202	230						integral to membrane				central_nervous_system(1)|skin(1)	2						CACTGTGATTCCAACAGAGAG	0.478													16	38	---	---	---	---	PASS
GOLGA6B	55889	broad.mit.edu	37	15	72953606	72953606	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:72953606C>T	uc010uks.1	+	8	607	c.566C>T	c.(565-567)TCC>TTC	p.S189F		NM_018652	NP_061122	A6NDN3	GOG6B_HUMAN	golgi autoantigen, golgin subfamily a, 6B	189	Potential.										0						ACCATCCAGTCCTCGAGCTGC	0.557													14	30	---	---	---	---	PASS
CD276	80381	broad.mit.edu	37	15	73994592	73994592	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:73994592C>T	uc002avv.1	+						CD276_uc010bjd.1_Intron|CD276_uc002avu.1_Intron|CD276_uc002avw.1_Intron|CD276_uc010ulb.1_Intron|CD276_uc002avx.2_5'Flank	NM_001024736	NP_001019907	Q5ZPR3	CD276_HUMAN	CD276 antigen isoform a						cell proliferation|immune response|positive regulation of interferon-gamma biosynthetic process|positive regulation of T cell proliferation|regulation of immune response|T cell activation	external side of plasma membrane|integral to membrane	receptor binding			skin(1)	1						CCCCCTACCCCCAGGAGCCCT	0.667													3	16	---	---	---	---	PASS
C15orf59	388135	broad.mit.edu	37	15	74032779	74032779	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:74032779G>A	uc002avy.2	-	2	706	c.361C>T	c.(361-363)CCC>TCC	p.P121S		NM_001039614	NP_001034703	Q2T9L4	CO059_HUMAN	hypothetical protein LOC388135	121										pancreas(1)	1						GAGTCCGAGGGGGTAGAGACG	0.637													20	60	---	---	---	---	PASS
GOLGA6A	342096	broad.mit.edu	37	15	74372960	74372960	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:74372960C>T	uc002axa.1	-	2	242	c.201G>A	c.(199-201)GGG>GGA	p.G67G		NM_001038640	NP_001033729	Q9NYA3	GOG6A_HUMAN	golgi autoantigen, golgin subfamily a, 6	67	Potential.										0						GACTCACATCCCCAGGTGAGT	0.418													8	89	---	---	---	---	PASS
ISLR2	57611	broad.mit.edu	37	15	74426484	74426484	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:74426484C>T	uc002axd.2	+	4	2158	c.1389C>T	c.(1387-1389)GAC>GAT	p.D463D	ISLR2_uc002axe.2_Silent_p.D463D|ISLR2_uc010bjg.2_Silent_p.D463D|ISLR2_uc010bjf.2_Silent_p.D463D	NM_001130136	NP_001123608	Q6UXK2	ISLR2_HUMAN	immunoglobulin superfamily containing	463	Extracellular (Potential).				positive regulation of axon extension	cell surface|integral to membrane|plasma membrane					0						GCAACGGGGACCCCTCTCGGT	0.662													4	11	---	---	---	---	PASS
ISLR2	57611	broad.mit.edu	37	15	74426485	74426485	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:74426485C>T	uc002axd.2	+	4	2159	c.1390C>T	c.(1390-1392)CCC>TCC	p.P464S	ISLR2_uc002axe.2_Missense_Mutation_p.P464S|ISLR2_uc010bjg.2_Missense_Mutation_p.P464S|ISLR2_uc010bjf.2_Missense_Mutation_p.P464S	NM_001130136	NP_001123608	Q6UXK2	ISLR2_HUMAN	immunoglobulin superfamily containing	464	Extracellular (Potential).				positive regulation of axon extension	cell surface|integral to membrane|plasma membrane					0						CAACGGGGACCCCTCTCGGTA	0.662													4	11	---	---	---	---	PASS
CCDC33	80125	broad.mit.edu	37	15	74564127	74564127	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:74564127G>A	uc002axo.2	+	6	1024	c.630G>A	c.(628-630)AAG>AAA	p.K210K	CCDC33_uc002axp.2_Silent_p.K32K	NM_025055	NP_079331	Q8N5R6	CCD33_HUMAN	coiled-coil domain containing 33 isoform 1	413							protein binding			ovary(3)|skin(2)	5						CCAACTACAAGGAATTTAAGT	0.597													7	9	---	---	---	---	PASS
CCDC33	80125	broad.mit.edu	37	15	74573145	74573145	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:74573145G>A	uc002axo.2	+						CCDC33_uc002axp.2_Intron	NM_025055	NP_079331	Q8N5R6	CCD33_HUMAN	coiled-coil domain containing 33 isoform 1								protein binding			ovary(3)|skin(2)	5						CCATCATGGTGAGCCCCCTGC	0.448													6	18	---	---	---	---	PASS
SEMA7A	8482	broad.mit.edu	37	15	74704319	74704319	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:74704319C>T	uc002axv.2	-	11	1369	c.1329G>A	c.(1327-1329)GGG>GGA	p.G443G	SEMA7A_uc010ulk.1_Silent_p.G278G|SEMA7A_uc010ull.1_Silent_p.G429G	NM_003612	NP_003603	O75326	SEM7A_HUMAN	semaphorin 7A isoform 1 preproprotein	443	Sema.				axon guidance|immune response|inflammatory response|integrin-mediated signaling pathway|positive regulation of axon extension|positive regulation of ERK1 and ERK2 cascade|positive regulation of macrophage cytokine production|regulation of inflammatory response	anchored to membrane|external side of plasma membrane	receptor activity			breast(1)|central_nervous_system(1)	2						GCTCCTGCTCCCCCGGTTCCA	0.632													8	31	---	---	---	---	PASS
CYP1A1	1543	broad.mit.edu	37	15	75013790	75013790	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:75013790T>C	uc002ayp.3	-	4	1129	c.1007A>G	c.(1006-1008)AAC>AGC	p.N336S	CYP1A1_uc010bjv.2_RNA|CYP1A1_uc010bjw.2_RNA|CYP1A1_uc010bju.2_Missense_Mutation_p.N72S|CYP1A1_uc010bjx.2_Missense_Mutation_p.N72S|CYP1A1_uc002ayq.3_Missense_Mutation_p.N336S|CYP1A1_uc010bjy.2_Missense_Mutation_p.N336S|CYP1A1_uc010bjz.1_Missense_Mutation_p.N72S	NM_000499	NP_000490	P04798	CP1A1_HUMAN	cytochrome P450, family 1, subfamily A,	336					cellular lipid metabolic process|drug metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding|vitamin D 24-hydroxylase activity			ovary(2)|breast(2)|pancreas(1)	5					Arsenic trioxide(DB01169)|Benzphetamine(DB00865)|Bleomycin(DB00290)|Chlorzoxazone(DB00356)|Dacarbazine(DB00851)|Dactinomycin(DB00970)|Esomeprazole(DB00736)|Estrone(DB00655)|Fluvastatin(DB01095)|Fluvoxamine(DB00176)|Ginseng(DB01404)|Granisetron(DB00889)|Ketoconazole(DB01026)|Menadione(DB00170)|Picrotoxin(DB00466)|Primaquine(DB01087)|Quinidine(DB00908)|Quinine(DB00468)|Thiabendazole(DB00730)	TACCCTGGGGTTCATCACCAA	0.552									Endometrial_Cancer_Familial_Clustering_of|ACTH-independent_macronodular_adrenal_hyperplasia				19	33	---	---	---	---	PASS
CYP1A2	1544	broad.mit.edu	37	15	75042389	75042389	+	Missense_Mutation	SNP	G	A	A	rs34067076	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:75042389G>A	uc002ayr.1	+	2	374	c.310G>A	c.(310-312)GAT>AAT	p.D104N		NM_000761	NP_000752	P05177	CP1A2_HUMAN	cytochrome P450, family 1, subfamily A,	104					alkaloid metabolic process|exogenous drug catabolic process|methylation|monocarboxylic acid metabolic process|monoterpenoid metabolic process|oxidative deethylation|oxidative demethylation|steroid catabolic process|toxin biosynthetic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|caffeine oxidase activity|demethylase activity|electron carrier activity|enzyme binding|heme binding|oxygen binding			ovary(3)|breast(1)	4					Acenocoumarol(DB01418)|Acetaminophen(DB00316)|Aciclovir(DB00787)|Alosetron(DB00969)|Aminophenazone(DB01424)|Amitriptyline(DB00321)|Anagrelide(DB00261)|Azelastine(DB00972)|Bortezomib(DB00188)|Caffeine(DB00201)|Carmustine(DB00262)|Chlordiazepoxide(DB00475)|Chlorpromazine(DB00477)|Chlorzoxazone(DB00356)|Cimetidine(DB00501)|Cinacalcet(DB01012)|Ciprofloxacin(DB00537)|Clomipramine(DB01242)|Clotrimazole(DB00257)|Clozapine(DB00363)|Conjugated Estrogens(DB00286)|Cyclobenzaprine(DB00924)|Dacarbazine(DB00851)|Desloratadine(DB00967)|Diazepam(DB00829)|Dibucaine(DB00527)|Diclofenac(DB00586)|Duloxetine(DB00476)|Enoxacin(DB00467)|Esomeprazole(DB00736)|Estradiol(DB00783)|Estrone(DB00655)|Fluorouracil(DB00544)|Flutamide(DB00499)|Fluvoxamine(DB00176)|Frovatriptan(DB00998)|Grepafloxacin(DB00365)|Haloperidol(DB00502)|Hesperetin(DB01094)|Imipramine(DB00458)|Ketoconazole(DB01026)|Leflunomide(DB01097)|Levobupivacaine(DB01002)|Levofloxacin(DB01137)|Lidocaine(DB00281)|Lomefloxacin(DB00978)|Melatonin(DB01065)|Mephenytoin(DB00532)|Mexiletine(DB00379)|Mirtazapine(DB00370)|Norfloxacin(DB01059)|Nortriptyline(DB00540)|Ofloxacin(DB01165)|Olanzapine(DB00334)|Ondansetron(DB00904)|Palonosetron(DB00377)|Pantoprazole(DB00213)|Pefloxacin(DB00487)|Pimozide(DB01100)|Propafenone(DB01182)|Propranolol(DB00571)|Quinidine(DB00908)|Ramelteon(DB00980)|Ranitidine(DB00863)|Rasagiline(DB01367)|Rifampin(DB01045)|Riluzole(DB00740)|Rofecoxib(DB00533)|Ropinirole(DB00268)|Ropivacaine(DB00296)|Tacrine(DB00382)|Telithromycin(DB00976)|Terfenadine(DB00342)|Theophylline(DB00277)|Thiabendazole(DB00730)|Tizanidine(DB00697)|Tolbutamide(DB01124)|Verapamil(DB00661)|Warfarin(DB00682)|Zileuton(DB00744)|Zolmitriptan(DB00315)	GCAGGGCGACGATTTCAAGGG	0.672													6	20	---	---	---	---	PASS
CSK	1445	broad.mit.edu	37	15	75094051	75094051	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:75094051C>T	uc010bkb.1	+	12	1086	c.903C>T	c.(901-903)GCC>GCT	p.A301A	CSK_uc002ays.2_Silent_p.A301A|CSK_uc010bkc.1_Silent_p.A110A	NM_001127190	NP_001120662	P41240	CSK_HUMAN	c-src tyrosine kinase	301	Protein kinase.				blood coagulation|epidermal growth factor receptor signaling pathway|T cell costimulation|T cell receptor signaling pathway	centrosome|cytosol|Golgi apparatus	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein C-terminus binding			lung(2)|central_nervous_system(1)	3						TCTGCGAGGCCATGGAATACC	0.597													11	19	---	---	---	---	PASS
LMAN1L	79748	broad.mit.edu	37	15	75112435	75112435	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:75112435C>T	uc002ayt.1	+	7	771	c.769C>T	c.(769-771)CCA>TCA	p.P257S	LMAN1L_uc010bkd.2_3'UTR|LMAN1L_uc010ulo.1_3'UTR|LMAN1L_uc010bke.1_Intron	NM_021819	NP_068591	Q9HAT1	LMA1L_HUMAN	lectin, mannose-binding, 1 like precursor	257	Lumenal (Potential).					ER-Golgi intermediate compartment membrane|integral to membrane	sugar binding				0						TGAGCCCAGCCCAGAGGTGAT	0.602													10	28	---	---	---	---	PASS
FBXO22	26263	broad.mit.edu	37	15	76206519	76206519	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:76206519C>T	uc002bbk.2	+	4	541	c.436C>T	c.(436-438)CTT>TTT	p.L146F	FBXO22_uc002bbj.1_Missense_Mutation_p.L146F|FBXO22_uc002bbl.2_Missense_Mutation_p.L42F	NM_147188	NP_671717	Q8NEZ5	FBX22_HUMAN	F-box only protein 22 isoform a	146					ubiquitin-dependent protein catabolic process		ubiquitin-protein ligase activity				0						ATGCCAAGTCCTTGGGATTGT	0.383													12	22	---	---	---	---	PASS
SCAPER	49855	broad.mit.edu	37	15	77025689	77025689	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:77025689G>A	uc002bby.2	-	15	1962	c.1903C>T	c.(1903-1905)CAG>TAG	p.Q635*	SCAPER_uc002bbx.2_Nonsense_Mutation_p.Q389*|SCAPER_uc002bbz.1_Nonsense_Mutation_p.Q506*|SCAPER_uc002bca.1_Nonsense_Mutation_p.Q500*|SCAPER_uc002bcb.1_Nonsense_Mutation_p.Q641*	NM_020843	NP_065894	Q9BY12	SCAPE_HUMAN	S-phase cyclin A-associated protein in the ER	634	Glu-rich.					endoplasmic reticulum|nucleus	zinc ion binding			large_intestine(1)|lung(1)|ovary(1)	3						CGTTTATTCTGGGCTTCAAGG	0.343													7	31	---	---	---	---	PASS
SCAPER	49855	broad.mit.edu	37	15	77025690	77025690	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:77025690G>A	uc002bby.2	-	15	1961	c.1902C>T	c.(1900-1902)GCC>GCT	p.A634A	SCAPER_uc002bbx.2_Silent_p.A388A|SCAPER_uc002bbz.1_Silent_p.A505A|SCAPER_uc002bca.1_Silent_p.A499A|SCAPER_uc002bcb.1_Silent_p.A640A	NM_020843	NP_065894	Q9BY12	SCAPE_HUMAN	S-phase cyclin A-associated protein in the ER	633	Glu-rich.					endoplasmic reticulum|nucleus	zinc ion binding			large_intestine(1)|lung(1)|ovary(1)	3						GTTTATTCTGGGCTTCAAGGG	0.343													7	31	---	---	---	---	PASS
LINGO1	84894	broad.mit.edu	37	15	77907381	77907381	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:77907381G>A	uc002bct.1	-	2	920	c.868C>T	c.(868-870)CGC>TGC	p.R290C	LINGO1_uc002bcu.1_Missense_Mutation_p.R284C	NM_032808	NP_116197	Q96FE5	LIGO1_HUMAN	leucine-rich repeat neuronal 6A	290	Extracellular (Potential).|LRR 9.				negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane				ovary(1)|lung(1)	2						TTGAGGAAGCGGAGATAGACT	0.607													10	22	---	---	---	---	PASS
ACSBG1	23205	broad.mit.edu	37	15	78471062	78471062	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:78471062C>T	uc002bdh.2	-	11	1652	c.1596G>A	c.(1594-1596)ATG>ATA	p.M532I	ACSBG1_uc010umw.1_Missense_Mutation_p.M528I|ACSBG1_uc010umx.1_Missense_Mutation_p.M290I	NM_015162	NP_055977	Q96GR2	ACBG1_HUMAN	lipidosin	532					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						TCTTGTCCTCCATGTTCAGGT	0.627													6	11	---	---	---	---	PASS
ACSBG1	23205	broad.mit.edu	37	15	78471960	78471960	+	Silent	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:78471960C>A	uc002bdh.2	-	10	1472	c.1416G>T	c.(1414-1416)GCG>GCT	p.A472A	ACSBG1_uc010umw.1_Silent_p.A468A|ACSBG1_uc010umx.1_Silent_p.A230A	NM_015162	NP_055977	Q96GR2	ACBG1_HUMAN	lipidosin	472	ATP (By similarity).				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						GGCCGTAGCCCGCATACAAGC	0.567													4	37	---	---	---	---	PASS
ACSBG1	23205	broad.mit.edu	37	15	78471990	78471990	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:78471990G>A	uc002bdh.2	-	10	1442	c.1386C>T	c.(1384-1386)TTC>TTT	p.F462F	ACSBG1_uc010umw.1_Silent_p.F458F|ACSBG1_uc010umx.1_Silent_p.F220F	NM_015162	NP_055977	Q96GR2	ACBG1_HUMAN	lipidosin	462					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						GACCCAGGAAGAAGTGCTGTG	0.557													22	32	---	---	---	---	PASS
ACSBG1	23205	broad.mit.edu	37	15	78500387	78500387	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:78500387G>A	uc002bdh.2	-	2	245	c.189C>T	c.(187-189)CTC>CTT	p.L63L	ACSBG1_uc010umw.1_Silent_p.L63L|ACSBG1_uc010umx.1_Intron|ACSBG1_uc010umy.1_Intron	NM_015162	NP_055977	Q96GR2	ACBG1_HUMAN	lipidosin	63					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						CTGGCACTGAGAGCTCGAGAG	0.577													4	13	---	---	---	---	PASS
IREB2	3658	broad.mit.edu	37	15	78755400	78755400	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:78755400C>T	uc002bdr.2	+	3	405	c.243C>T	c.(241-243)TTC>TTT	p.F81F	IREB2_uc010unb.1_5'UTR|IREB2_uc002bdq.2_Silent_p.F81F	NM_004136	NP_004127	P48200	IREB2_HUMAN	iron-responsive element binding protein 2	81							4 iron, 4 sulfur cluster binding|metal ion binding|protein binding				0				UCEC - Uterine corpus endometrioid carcinoma (272;0.232)		TGCCCTTTTTCCCTGCCCGTG	0.358													30	50	---	---	---	---	PASS
ADAMTS7	11173	broad.mit.edu	37	15	79063624	79063624	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:79063624G>A	uc002bej.3	-	16	2609	c.2398C>T	c.(2398-2400)CCT>TCT	p.P800S	ADAMTS7_uc010und.1_Intron|ADAMTS7_uc002bek.1_3'UTR	NM_014272	NP_055087	Q9UKP4	ATS7_HUMAN	ADAM metallopeptidase with thrombospondin type 1	800	Spacer.				proteolysis	proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0						TGCACCCCAGGGTTGCTCTCC	0.642													3	6	---	---	---	---	PASS
RASGRF1	5923	broad.mit.edu	37	15	79310252	79310252	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:79310252C>T	uc002beq.2	-						RASGRF1_uc002bep.2_Intron|RASGRF1_uc010blm.1_Intron|RASGRF1_uc002ber.3_Intron|RASGRF1_uc010unh.1_5'UTR	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine						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						CCTTTGGCTTCCAGTTGTAAA	0.488													16	37	---	---	---	---	PASS
RASGRF1	5923	broad.mit.edu	37	15	79323819	79323819	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:79323819G>A	uc002beq.2	-	8	1560	c.1185C>T	c.(1183-1185)CTC>CTT	p.L395L	RASGRF1_uc002bep.2_Silent_p.L395L|RASGRF1_uc010blm.1_Silent_p.L317L|RASGRF1_uc002ber.3_Silent_p.L395L	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	395	DH.				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						TGTGGGCCAGGAGCTCATGGA	0.622													6	13	---	---	---	---	PASS
RASGRF1	5923	broad.mit.edu	37	15	79323849	79323849	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:79323849G>A	uc002beq.2	-	8	1530	c.1155C>T	c.(1153-1155)ATC>ATT	p.I385I	RASGRF1_uc002bep.2_Silent_p.I385I|RASGRF1_uc010blm.1_Silent_p.I307I|RASGRF1_uc002ber.3_Silent_p.I385I	NM_002891	NP_002882	Q13972	RGRF1_HUMAN	Ras protein-specific guanine	385	DH.				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						TGTACCTGGGGATCTGCGGGC	0.547													7	13	---	---	---	---	PASS
KIAA1024	23251	broad.mit.edu	37	15	79749282	79749282	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:79749282C>T	uc002bew.1	+	2	868	c.793C>T	c.(793-795)CAC>TAC	p.H265Y	KIAA1024_uc010unk.1_Missense_Mutation_p.H265Y	NM_015206	NP_056021	Q9UPX6	K1024_HUMAN	hypothetical protein LOC23251	265						integral to membrane				pancreas(2)|ovary(1)|central_nervous_system(1)	4						AGAGGATTTTCACAATTTGAT	0.498													14	55	---	---	---	---	PASS
ZFAND6	54469	broad.mit.edu	37	15	80415061	80415061	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:80415061C>T	uc002bfe.1	+	5	594	c.283C>T	c.(283-285)CTT>TTT	p.L95F	ZFAND6_uc002bff.1_Missense_Mutation_p.L95F|ZFAND6_uc002bfg.1_Missense_Mutation_p.L83F|ZFAND6_uc002bfh.1_Missense_Mutation_p.L95F|ZFAND6_uc002bfi.1_Missense_Mutation_p.L95F	NM_019006	NP_061879	Q6FIF0	ZFAN6_HUMAN	zinc finger, AN1-type domain 6	95	Ser-rich.						DNA binding|zinc ion binding				0						AAATCAGTCACTTTTATCAGA	0.353													22	44	---	---	---	---	PASS
SLC28A1	9154	broad.mit.edu	37	15	85476451	85476451	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:85476451C>T	uc002blg.2	+	13	1361	c.1159C>T	c.(1159-1161)CCG>TCG	p.P387S	SLC28A1_uc010bnb.2_Missense_Mutation_p.P387S|SLC28A1_uc010upe.1_Intron|SLC28A1_uc010upf.1_Missense_Mutation_p.P387S|SLC28A1_uc010upg.1_Missense_Mutation_p.P387S	NM_004213	NP_004204	O00337	S28A1_HUMAN	solute carrier family 28, member 1 isoform 1	387					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)			GCTGGTCTACCCGGAGGTGGA	0.567													10	46	---	---	---	---	PASS
SLC28A1	9154	broad.mit.edu	37	15	85476452	85476452	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:85476452C>T	uc002blg.2	+	13	1362	c.1160C>T	c.(1159-1161)CCG>CTG	p.P387L	SLC28A1_uc010bnb.2_Missense_Mutation_p.P387L|SLC28A1_uc010upe.1_Intron|SLC28A1_uc010upf.1_Missense_Mutation_p.P387L|SLC28A1_uc010upg.1_Missense_Mutation_p.P387L	NM_004213	NP_004204	O00337	S28A1_HUMAN	solute carrier family 28, member 1 isoform 1	387					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)			CTGGTCTACCCGGAGGTGGAG	0.572													12	46	---	---	---	---	PASS
AKAP13	11214	broad.mit.edu	37	15	86198952	86198952	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:86198952C>T	uc002blv.1	+	11	4849	c.4679C>T	c.(4678-4680)CCC>CTC	p.P1560L	AKAP13_uc002blt.1_Missense_Mutation_p.P1560L|AKAP13_uc002blu.1_Missense_Mutation_p.P1560L|AKAP13_uc010bnf.1_Missense_Mutation_p.P200L|AKAP13_uc002blw.1_Missense_Mutation_p.P45L|AKAP13_uc010bne.1_Missense_Mutation_p.P213L	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2	1560					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|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						TCTCTTTCTCCCTTCCGGAGG	0.572													11	30	---	---	---	---	PASS
AKAP13	11214	broad.mit.edu	37	15	86266295	86266295	+	Intron	SNP	C	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:86266295C>G	uc002blv.1	+						AKAP13_uc002blu.1_Intron|AKAP13_uc010bnf.1_Intron|AKAP13_uc002blw.1_Intron|AKAP13_uc002blx.1_Intron	NM_007200	NP_009131	Q12802	AKP13_HUMAN	A-kinase anchor protein 13 isoform 2						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|membrane|membrane fraction|nucleus	cAMP-dependent protein kinase activity|metal ion binding|protein binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity			central_nervous_system(3)|kidney(2)|urinary_tract(1)|liver(1)|skin(1)|ovary(1)	9						TTATTCTTTCCTTCCAAGACA	0.428													15	18	---	---	---	---	PASS
AGBL1	123624	broad.mit.edu	37	15	86697721	86697721	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:86697721C>T	uc002blz.1	+	3	265	c.185C>T	c.(184-186)GCC>GTC	p.A62V		NM_152336	NP_689549	Q96MI9	CBPC4_HUMAN	ATP/GTP binding protein-like 1	62					C-terminal protein deglutamylation|protein side chain deglutamylation|proteolysis	cytosol	metallocarboxypeptidase activity|tubulin binding|zinc ion binding				0						TTGATTCTGGCCAGGAAGAAC	0.468													5	14	---	---	---	---	PASS
ACAN	176	broad.mit.edu	37	15	89388994	89388994	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:89388994G>A	uc010upo.1	+	7	1684	c.1310G>A	c.(1309-1311)GGA>GAA	p.G437E	ACAN_uc002bmx.2_Missense_Mutation_p.G437E|ACAN_uc010upp.1_Missense_Mutation_p.G437E|ACAN_uc002bna.2_RNA	NM_013227	NP_037359	E7EX88	E7EX88_HUMAN	aggrecan isoform 2 precursor	437					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)			AATGAGACTGGAGAGGCCACC	0.642													6	14	---	---	---	---	PASS
POLG	5428	broad.mit.edu	37	15	89872200	89872200	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:89872200G>A	uc002bns.3	-	4	1279	c.997C>T	c.(997-999)CAG>TAG	p.Q333*	POLG_uc002bnr.3_Nonsense_Mutation_p.Q333*	NM_002693	NP_002684	P54098	DPOG1_HUMAN	DNA-directed DNA polymerase gamma	333					base-excision repair, gap-filling|cell death|DNA-dependent DNA replication	mitochondrial nucleoid	DNA binding|DNA-directed DNA polymerase activity|protease binding			ovary(1)|lung(1)	2	Lung NSC(78;0.0472)|all_lung(78;0.089)		STAD - Stomach adenocarcinoma(125;0.165)			GCTTTCCTCTGGGACTTCTGG	0.637								DNA_polymerases_(catalytic_subunits)					14	30	---	---	---	---	PASS
C15orf42	90381	broad.mit.edu	37	15	90126188	90126188	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:90126188C>T	uc002boe.2	+	2	926	c.926C>T	c.(925-927)CCT>CTT	p.P309L		NM_152259	NP_689472	Q7Z2Z1	TICRR_HUMAN	leucine-rich repeat kinase 1	309					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)			TTATTTCTCCCTGTTGAAGGT	0.338													13	33	---	---	---	---	PASS
KIF7	374654	broad.mit.edu	37	15	90188364	90188364	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:90188364G>A	uc002bof.2	-	10	2148	c.2071C>T	c.(2071-2073)CGC>TGC	p.R691C	KIF7_uc010upw.1_Missense_Mutation_p.R177C	NM_198525	NP_940927	Q2M1P5	KIF7_HUMAN	kinesin family member 7	691					microtubule-based movement|negative regulation of smoothened signaling pathway|positive regulation of smoothened signaling pathway	cilium	ATP binding|microtubule motor activity|protein binding			ovary(2)|lung(1)	3	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			GGGACCTGGCGGGCCTGAACT	0.632													8	16	---	---	---	---	PASS
KIF7	374654	broad.mit.edu	37	15	90188365	90188365	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:90188365G>A	uc002bof.2	-	10	2147	c.2070C>T	c.(2068-2070)GCC>GCT	p.A690A	KIF7_uc010upw.1_Silent_p.A176A	NM_198525	NP_940927	Q2M1P5	KIF7_HUMAN	kinesin family member 7	690					microtubule-based movement|negative regulation of smoothened signaling pathway|positive regulation of smoothened signaling pathway	cilium	ATP binding|microtubule motor activity|protein binding			ovary(2)|lung(1)	3	Lung NSC(78;0.0237)|all_lung(78;0.0478)		BRCA - Breast invasive adenocarcinoma(143;0.128)			GGACCTGGCGGGCCTGAACTC	0.637													8	16	---	---	---	---	PASS
IQGAP1	8826	broad.mit.edu	37	15	91025317	91025317	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:91025317C>T	uc002bpl.1	+	27	3556	c.3455C>T	c.(3454-3456)TCT>TTT	p.S1152F		NM_003870	NP_003861	P46940	IQGA1_HUMAN	IQ motif containing GTPase activating protein 1	1152	Ras-GAP.|C1.				energy reserve metabolic process|regulation of insulin secretion|small GTPase mediated signal transduction	actin filament|cytoplasm|midbody|nucleus|plasma membrane	calmodulin binding|GTPase inhibitor activity|protein phosphatase binding|Ras GTPase activator activity			ovary(2)|lung(2)|central_nervous_system(2)|pancreas(1)|skin(1)	8	Melanoma(11;0.00551)|Lung NSC(78;0.0237)|all_lung(78;0.0488)		BRCA - Breast invasive adenocarcinoma(143;0.0745)|KIRC - Kidney renal clear cell carcinoma(17;0.138)|Kidney(142;0.194)			ATTGTCAGCTCTGTGGACAAA	0.517											OREG0023473	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	16	45	---	---	---	---	PASS
FURIN	5045	broad.mit.edu	37	15	91424898	91424898	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:91424898C>T	uc002bpu.1	+	16	2391	c.2175C>T	c.(2173-2175)ATC>ATT	p.I725I	FES_uc010uqj.1_5'Flank|FES_uc010uqk.1_5'Flank|FES_uc002bpw.2_5'Flank|FES_uc002bpv.2_5'Flank	NM_002569	NP_002560	P09958	FURIN_HUMAN	furin preproprotein	725	Helical; (Potential).				cell proliferation|negative regulation of low-density lipoprotein particle receptor catabolic process|negative regulation of transforming growth factor-beta1 production|nerve growth factor processing|nerve growth factor production|nerve growth factor receptor signaling pathway|Notch signaling pathway|peptide biosynthetic process|peptidyl-glutamic acid carboxylation|post-translational protein modification|secretion by cell|signal peptide processing|transforming growth factor beta receptor signaling pathway|viral assembly, maturation, egress, and release	cell surface|Golgi lumen|Golgi membrane|integral to membrane|membrane raft|plasma membrane|trans-Golgi network|trans-Golgi network transport vesicle	metal ion binding|nerve growth factor binding|peptide binding|protease binding|serine-type endopeptidase activity|serine-type endopeptidase inhibitor activity			central_nervous_system(4)|lung(2)|breast(1)	7	Lung NSC(78;0.0771)|all_lung(78;0.137)		Lung(145;0.189)			GCGCCTTCATCGTGCTGGTCT	0.662													24	43	---	---	---	---	PASS
MAN2A2	4122	broad.mit.edu	37	15	91447563	91447563	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:91447563C>T	uc010bnz.2	+	2	241	c.126C>T	c.(124-126)TTC>TTT	p.F42F	MAN2A2_uc010boa.2_Silent_p.F84F|MAN2A2_uc002bqc.2_Silent_p.F42F|MAN2A2_uc010uql.1_5'Flank|MAN2A2_uc010uqm.1_5'Flank	NM_006122	NP_006113	P49641	MA2A2_HUMAN	mannosidase, alpha, class 2A, member 2	42	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)			GTGGGAACTTCCCCCGGGTGA	0.607													18	42	---	---	---	---	PASS
MAN2A2	4122	broad.mit.edu	37	15	91447564	91447564	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:91447564C>T	uc010bnz.2	+	2	242	c.127C>T	c.(127-129)CCC>TCC	p.P43S	MAN2A2_uc010boa.2_Missense_Mutation_p.P85S|MAN2A2_uc002bqc.2_Missense_Mutation_p.P43S|MAN2A2_uc010uql.1_5'Flank|MAN2A2_uc010uqm.1_5'Flank	NM_006122	NP_006113	P49641	MA2A2_HUMAN	mannosidase, alpha, class 2A, member 2	43	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)			TGGGAACTTCCCCCGGGTGAG	0.612													18	42	---	---	---	---	PASS
MAN2A2	4122	broad.mit.edu	37	15	91447565	91447565	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:91447565C>T	uc010bnz.2	+	2	243	c.128C>T	c.(127-129)CCC>CTC	p.P43L	MAN2A2_uc010boa.2_Missense_Mutation_p.P85L|MAN2A2_uc002bqc.2_Missense_Mutation_p.P43L|MAN2A2_uc010uql.1_5'Flank|MAN2A2_uc010uqm.1_5'Flank	NM_006122	NP_006113	P49641	MA2A2_HUMAN	mannosidase, alpha, class 2A, member 2	43	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)			GGGAACTTCCCCCGGGTGAGT	0.607													18	39	---	---	---	---	PASS
MAN2A2	4122	broad.mit.edu	37	15	91448890	91448890	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:91448890C>T	uc010bnz.2	+	4	587	c.472C>T	c.(472-474)CCG>TCG	p.P158S	MAN2A2_uc010boa.2_Missense_Mutation_p.P200S|MAN2A2_uc002bqc.2_Missense_Mutation_p.P158S|MAN2A2_uc010uql.1_5'Flank|MAN2A2_uc010uqm.1_5'Flank	NM_006122	NP_006113	P49641	MA2A2_HUMAN	mannosidase, alpha, class 2A, member 2	158	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)			CTCCTACGACCCGCACGACTG	0.602													9	19	---	---	---	---	PASS
MAN2A2	4122	broad.mit.edu	37	15	91450582	91450582	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:91450582C>T	uc010bnz.2	+	8	1168	c.1053C>T	c.(1051-1053)TTC>TTT	p.F351F	MAN2A2_uc010boa.2_Silent_p.F393F|MAN2A2_uc002bqc.2_Silent_p.F351F|MAN2A2_uc010uql.1_Silent_p.F55F|MAN2A2_uc010uqm.1_5'UTR	NM_006122	NP_006113	P49641	MA2A2_HUMAN	mannosidase, alpha, class 2A, member 2	351	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)			TGATGCCCTTCTACAGCTATG	0.582													25	44	---	---	---	---	PASS
PRC1	9055	broad.mit.edu	37	15	91524718	91524718	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:91524718G>A	uc002bqm.2	-						PRC1_uc002bqn.2_Intron|PRC1_uc002bqo.2_Intron|PRC1_uc010uqs.1_Intron|PRC1_uc010uqt.1_Missense_Mutation_p.S176F	NM_003981	NP_003972	O43663	PRC1_HUMAN	protein regulator of cytokinesis 1 isoform 1						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)					CATAATTTGAGAAGACAGTAC	0.388													9	19	---	---	---	---	PASS
C15orf32	145858	broad.mit.edu	37	15	93043579	93043579	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:93043579C>T	uc002brc.1	+						C15orf32_uc010bod.1_Intron	NM_153040	NP_694585	Q32M92	CO032_HUMAN	hypothetical protein LOC145858											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)			GGTGTGATTTCCTTTTTAGGG	0.468													32	54	---	---	---	---	PASS
CHD2	1106	broad.mit.edu	37	15	93467575	93467575	+	Silent	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:93467575G>T	uc002bsp.2	+	3	662	c.87G>T	c.(85-87)TCG>TCT	p.S29S	CHD2_uc002bsm.1_Silent_p.S29S|CHD2_uc002bsn.2_Silent_p.S29S|CHD2_uc002bso.1_Silent_p.S29S|CHD2_uc010urb.1_Silent_p.S42S	NM_001271	NP_001262	O14647	CHD2_HUMAN	chromodomain helicase DNA binding protein 2	29	Ser-rich.				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)			AAGAAGCTTCGGGTTCAGACT	0.433													4	88	---	---	---	---	PASS
MCTP2	55784	broad.mit.edu	37	15	94901850	94901850	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:94901850C>T	uc002btj.2	+						MCTP2_uc002bti.2_Intron|MCTP2_uc010boj.2_Intron|MCTP2_uc010bok.2_Intron|MCTP2_uc002btk.3_Intron|MCTP2_uc002btl.2_Intron	NM_018349	NP_060819	Q6DN12	MCTP2_HUMAN	multiple C2 domains, transmembrane 2 isoform 1						calcium-mediated signaling	integral to membrane|membrane fraction	calcium ion binding			ovary(1)|pancreas(1)|skin(1)	3	Lung NSC(78;0.0821)|all_lung(78;0.148)		BRCA - Breast invasive adenocarcinoma(143;0.0323)|OV - Ovarian serous cystadenocarcinoma(32;0.0593)			ACGTGAGTCCCCTCTGCTTTC	0.512													11	26	---	---	---	---	PASS
SPATA8	145946	broad.mit.edu	37	15	97327464	97327464	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:97327464G>T	uc002bue.2	+	2	381	c.171G>T	c.(169-171)AAG>AAT	p.K57N	uc010urp.1_5'Flank|uc002bud.1_5'Flank	NM_173499	NP_775770	Q6RVD6	SPAT8_HUMAN	spermatogenesis associated 8	57										ovary(1)|skin(1)	2	Melanoma(26;0.0142)|Lung NSC(78;0.041)|all_lung(78;0.0468)		OV - Ovarian serous cystadenocarcinoma(32;0.0718)			GAGGCCTCAAGGGCCCGGTGT	0.567													12	14	---	---	---	---	PASS
SPATA8	145946	broad.mit.edu	37	15	97328247	97328247	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:97328247G>A	uc002bue.2	+	3	428	c.218G>A	c.(217-219)AGG>AAG	p.R73K	uc010urp.1_5'Flank|uc002bud.1_5'Flank	NM_173499	NP_775770	Q6RVD6	SPAT8_HUMAN	spermatogenesis associated 8	73								p.R73R(1)		ovary(1)|skin(1)	2	Melanoma(26;0.0142)|Lung NSC(78;0.041)|all_lung(78;0.0468)		OV - Ovarian serous cystadenocarcinoma(32;0.0718)			TCTCACGGAAGGATCCAAAGG	0.458													17	52	---	---	---	---	PASS
ARRDC4	91947	broad.mit.edu	37	15	98513180	98513180	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:98513180C>T	uc010bom.2	+	6	1109	c.950C>T	c.(949-951)CCA>CTA	p.P317L	ARRDC4_uc002bui.3_Missense_Mutation_p.P230L	NM_183376	NP_899232	Q8NCT1	ARRD4_HUMAN	arrestin domain containing 4	317					signal transduction						0	Melanoma(26;0.00539)|Lung NSC(78;0.0125)|all_lung(78;0.0222)		OV - Ovarian serous cystadenocarcinoma(32;0.0417)			GGTACAATTCCATATAATGGT	0.408													7	30	---	---	---	---	PASS
SYNM	23336	broad.mit.edu	37	15	99672261	99672261	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:99672261G>A	uc002bup.2	+	6	3816	c.3696G>A	c.(3694-3696)AAG>AAA	p.K1232K	SYNM_uc002buo.2_Intron|SYNM_uc002buq.2_Intron	NM_145728	NP_663780	O15061	SYNEM_HUMAN	desmuslin isoform A	1232	Tail.|Interaction with TLN1 and VCL.				intermediate filament cytoskeleton organization	adherens junction|costamere|intermediate filament|neurofilament cytoskeleton	intermediate filament binding|structural constituent of cytoskeleton|structural constituent of muscle|vinculin binding			ovary(3)|central_nervous_system(1)	4						ATGCTGAAAAGGAGATTATTT	0.512													17	40	---	---	---	---	PASS
SYNM	23336	broad.mit.edu	37	15	99672262	99672262	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:99672262G>A	uc002bup.2	+	6	3817	c.3697G>A	c.(3697-3699)GAG>AAG	p.E1233K	SYNM_uc002buo.2_Intron|SYNM_uc002buq.2_Intron	NM_145728	NP_663780	O15061	SYNEM_HUMAN	desmuslin isoform A	1233	Tail.|Interaction with TLN1 and VCL.				intermediate filament cytoskeleton organization	adherens junction|costamere|intermediate filament|neurofilament cytoskeleton	intermediate filament binding|structural constituent of cytoskeleton|structural constituent of muscle|vinculin binding			ovary(3)|central_nervous_system(1)	4						TGCTGAAAAGGAGATTATTTT	0.507													16	41	---	---	---	---	PASS
ADAMTS17	170691	broad.mit.edu	37	15	100589176	100589176	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:100589176G>A	uc002bvv.1	-	18	2556	c.2477C>T	c.(2476-2478)TCG>TTG	p.S826L		NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1	826	TSP type-1 2.				proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		CCGTGTACACGAGACGATGGT	0.582													10	22	---	---	---	---	PASS
ADAMTS17	170691	broad.mit.edu	37	15	100692938	100692938	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:100692938G>A	uc002bvv.1	-	10	1431	c.1352C>T	c.(1351-1353)ACG>ATG	p.T451M	ADAMTS17_uc002bvx.1_Missense_Mutation_p.T208M	NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1	451	Peptidase M12B.				proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		TCTGGGGTCCGTGACTAGCAA	0.493													9	20	---	---	---	---	PASS
ADAMTS17	170691	broad.mit.edu	37	15	100821497	100821497	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:100821497G>A	uc002bvv.1	-	4	805	c.726C>T	c.(724-726)GCC>GCT	p.A242A	ADAMTS17_uc002bvx.1_5'UTR	NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1	242	Peptidase M12B.				proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		GCACCATGTCGGCGTCGGCCA	0.687													8	24	---	---	---	---	PASS
ADAMTS17	170691	broad.mit.edu	37	15	100821498	100821498	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:100821498G>A	uc002bvv.1	-	4	804	c.725C>T	c.(724-726)GCC>GTC	p.A242V	ADAMTS17_uc002bvx.1_5'UTR	NM_139057	NP_620688	Q8TE56	ATS17_HUMAN	ADAM metallopeptidase with thrombospondin type 1	242	Peptidase M12B.				proteolysis	intracellular|proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding			ovary(2)|central_nervous_system(1)	3	Lung NSC(78;0.00299)|all_lung(78;0.00457)|Melanoma(26;0.00571)		OV - Ovarian serous cystadenocarcinoma(32;0.0013)|LUSC - Lung squamous cell carcinoma(107;0.132)|Lung(145;0.161)	COAD - Colon adenocarcinoma(1;0.111)|all cancers(203;0.219)		CACCATGTCGGCGTCGGCCAC	0.687													7	24	---	---	---	---	PASS
LRRK1	79705	broad.mit.edu	37	15	101528975	101528975	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:101528975C>T	uc002bwr.2	+	5	889	c.570C>T	c.(568-570)TTC>TTT	p.F190F	LRRK1_uc010usb.1_RNA|LRRK1_uc010usc.1_RNA|LRRK1_uc002bwq.1_Silent_p.F190F	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	190					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)			AGAATGAGTTCCCTGTCATCG	0.612													16	20	---	---	---	---	PASS
LRRK1	79705	broad.mit.edu	37	15	101565079	101565079	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:101565079C>T	uc002bwr.2	+	16	2458	c.2139C>T	c.(2137-2139)TTC>TTT	p.F713F	LRRK1_uc010usb.1_RNA|LRRK1_uc010usc.1_RNA	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	leucine-rich repeat kinase 1	713	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)			ACCAGTGCTTCTTCACGGACA	0.612													32	70	---	---	---	---	PASS
PCSK6	5046	broad.mit.edu	37	15	101853499	101853499	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:101853499G>A	uc002bwy.2	-						PCSK6_uc010bpd.2_Intron|PCSK6_uc010bpe.2_Intron|PCSK6_uc002bxa.2_Silent_p.S927S|PCSK6_uc002bxb.2_Silent_p.S914S	NM_002570	NP_002561	P29122	PCSK6_HUMAN	paired basic amino acid cleaving system 4						glycoprotein metabolic process|nerve growth factor processing|nerve growth factor production|nerve growth factor receptor signaling pathway|regulation of BMP signaling pathway|secretion by cell	cell surface|endomembrane system|endoplasmic reticulum|extracellular matrix|extracellular space|Golgi lumen|membrane|soluble fraction	eukaryotic cell surface binding|heparin binding|nerve growth factor binding|serine-type endopeptidase activity			pancreas(2)	2	Lung NSC(78;0.00102)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000803)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			CGGCCCCTGGGGAAGATGCTG	0.612													6	7	---	---	---	---	PASS
PCSK6	5046	broad.mit.edu	37	15	101872087	101872087	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:101872087C>T	uc002bwy.2	-	15	2322	c.2008G>A	c.(2008-2010)GAA>AAA	p.E670K	PCSK6_uc010bpd.2_Missense_Mutation_p.E466K|PCSK6_uc010bpe.2_Missense_Mutation_p.E670K|PCSK6_uc002bxa.2_Missense_Mutation_p.E670K|PCSK6_uc002bxb.2_Missense_Mutation_p.E670K	NM_002570	NP_002561	P29122	PCSK6_HUMAN	paired basic amino acid cleaving system 4	670					glycoprotein metabolic process|nerve growth factor processing|nerve growth factor production|nerve growth factor receptor signaling pathway|regulation of BMP signaling pathway|secretion by cell	cell surface|endomembrane system|endoplasmic reticulum|extracellular matrix|extracellular space|Golgi lumen|membrane|soluble fraction	eukaryotic cell surface binding|heparin binding|nerve growth factor binding|serine-type endopeptidase activity			pancreas(2)	2	Lung NSC(78;0.00102)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000803)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			TCAGGAACTTCCACCTGGGAG	0.557													8	9	---	---	---	---	PASS
PCSK6	5046	broad.mit.edu	37	15	101872088	101872088	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:101872088C>T	uc002bwy.2	-	15	2321	c.2007G>A	c.(2005-2007)GTG>GTA	p.V669V	PCSK6_uc010bpd.2_Silent_p.V465V|PCSK6_uc010bpe.2_Silent_p.V669V|PCSK6_uc002bxa.2_Silent_p.V669V|PCSK6_uc002bxb.2_Silent_p.V669V	NM_002570	NP_002561	P29122	PCSK6_HUMAN	paired basic amino acid cleaving system 4	669					glycoprotein metabolic process|nerve growth factor processing|nerve growth factor production|nerve growth factor receptor signaling pathway|regulation of BMP signaling pathway|secretion by cell	cell surface|endomembrane system|endoplasmic reticulum|extracellular matrix|extracellular space|Golgi lumen|membrane|soluble fraction	eukaryotic cell surface binding|heparin binding|nerve growth factor binding|serine-type endopeptidase activity			pancreas(2)	2	Lung NSC(78;0.00102)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000803)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			CAGGAACTTCCACCTGGGAGG	0.562													8	9	---	---	---	---	PASS
PCSK6	5046	broad.mit.edu	37	15	101922317	101922317	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:101922317G>A	uc002bwy.2	-	12	1826	c.1512C>T	c.(1510-1512)GCC>GCT	p.A504A	PCSK6_uc010bpd.2_Intron|PCSK6_uc010bpe.2_Silent_p.A504A|PCSK6_uc002bxa.2_Silent_p.A504A|PCSK6_uc002bxb.2_Silent_p.A504A|PCSK6_uc002bxc.1_Silent_p.A504A|PCSK6_uc002bxd.1_Silent_p.A504A|PCSK6_uc002bxe.2_Silent_p.A504A|PCSK6_uc002bxf.1_Silent_p.A4A	NM_002570	NP_002561	P29122	PCSK6_HUMAN	paired basic amino acid cleaving system 4	504	Homo B/P.				glycoprotein metabolic process|nerve growth factor processing|nerve growth factor production|nerve growth factor receptor signaling pathway|regulation of BMP signaling pathway|secretion by cell	cell surface|endomembrane system|endoplasmic reticulum|extracellular matrix|extracellular space|Golgi lumen|membrane|soluble fraction	eukaryotic cell surface binding|heparin binding|nerve growth factor binding|serine-type endopeptidase activity			pancreas(2)	2	Lung NSC(78;0.00102)|all_lung(78;0.00128)|Melanoma(26;0.00505)		OV - Ovarian serous cystadenocarcinoma(32;0.000803)|LUSC - Lung squamous cell carcinoma(107;0.187)|Lung(145;0.23)			TGTCCGAGGCGGCCACACACA	0.557													5	15	---	---	---	---	PASS
TARSL2	123283	broad.mit.edu	37	15	102242492	102242492	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:102242492C>T	uc002bxm.2	-	9	1226	c.1171G>A	c.(1171-1173)GAA>AAA	p.E391K	TARSL2_uc002bxl.2_5'UTR|TARSL2_uc010usi.1_RNA	NM_152334	NP_689547	A2RTX5	SYTC2_HUMAN	threonyl-tRNA synthetase-like 2	391					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)			TGGAACTTTTCCCAGTCTCTC	0.428													28	74	---	---	---	---	PASS
OR4F6	390648	broad.mit.edu	37	15	102346096	102346096	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:102346096C>T	uc010utr.1	+	1	174	c.174C>T	c.(172-174)CCC>CCT	p.P58P		NM_001005326	NP_001005326	Q8NGB9	OR4F6_HUMAN	olfactory receptor, family 4, subfamily F,	58	Helical; Name=2; (Potential).				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)			TACAGTCCCCCATGTACTTCC	0.458													41	93	---	---	---	---	PASS
ITFG3	83986	broad.mit.edu	37	16	304623	304623	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:304623C>T	uc002cgf.2	+	3	406	c.211C>T	c.(211-213)CCG>TCG	p.P71S	ITFG3_uc010bqr.2_Intron|ITFG3_uc002cgg.2_Missense_Mutation_p.P71S|ITFG3_uc010uud.1_RNA|ITFG3_uc002cgh.2_Missense_Mutation_p.P71S	NM_032039	NP_114428	Q9H0X4	ITFG3_HUMAN	integrin alpha FG-GAP repeat containing 3	71	Extracellular (Potential).					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)				ATTCGTCATCCCGTGTCCAGA	0.612													70	49	---	---	---	---	PASS
MSLN	10232	broad.mit.edu	37	16	816633	816633	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:816633C>T	uc002cjw.1	+						MSLN_uc002cjt.1_Intron|MSLN_uc002cju.1_Intron|MSLN_uc010brd.1_Intron|MSLN_uc002cjv.1_Intron|MSLN_uc002cjx.1_Intron|MSLN_uc002cjy.1_Intron	NM_013404	NP_037536	Q13421	MSLN_HUMAN	mesothelin isoform 2 preproprotein						cell adhesion	anchored to membrane|extracellular region|Golgi apparatus|plasma membrane				pancreas(1)	1		Hepatocellular(780;0.00335)				TACATCTCTCCTTGCCACAAG	0.647													29	12	---	---	---	---	PASS
CACNA1H	8912	broad.mit.edu	37	16	1257787	1257787	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:1257787C>T	uc002cks.2	+	15	3329	c.3081C>T	c.(3079-3081)TCC>TCT	p.S1027S	CACNA1H_uc002ckt.2_Silent_p.S1027S|CACNA1H_uc002cku.2_5'Flank|CACNA1H_uc010brj.2_5'Flank|CACNA1H_uc002ckv.2_5'Flank	NM_021098	NP_066921	O95180	CAC1H_HUMAN	calcium channel, voltage-dependent, T type,	1027	Cytoplasmic (Potential).				aldosterone biosynthetic process|axon guidance|cellular response to hormone stimulus|cellular response to potassium ion|cortisol biosynthetic process|muscle contraction|myoblast fusion|positive regulation of acrosome reaction|regulation of heart contraction	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(2)	2		Hepatocellular(780;0.00369)			Flunarizine(DB04841)|Mibefradil(DB01388)	CCAACAGATCCGACACGGACG	0.617													8	2	---	---	---	---	PASS
BAIAP3	8938	broad.mit.edu	37	16	1394101	1394101	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:1394101C>T	uc002clk.1	+	16	1570	c.1570C>T	c.(1570-1572)CCT>TCT	p.P524S	BAIAP3_uc002clj.2_Missense_Mutation_p.P506S|BAIAP3_uc010uuz.1_Missense_Mutation_p.P489S|BAIAP3_uc010uva.1_Missense_Mutation_p.P461S|BAIAP3_uc010uvc.1_Missense_Mutation_p.P453S	NM_003933	NP_003924	O94812	BAIP3_HUMAN	BAI1-associated protein 3	524					G-protein coupled receptor protein signaling pathway|neurotransmitter secretion		protein C-terminus binding			pancreas(1)	1		Hepatocellular(780;0.0893)				AGACTACTTCCCTGCCACCAA	0.682													4	7	---	---	---	---	PASS
TELO2	9894	broad.mit.edu	37	16	1545551	1545551	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:1545551C>T	uc002cly.2	+	3	831	c.540C>T	c.(538-540)TTC>TTT	p.F180F	TELO2_uc010uvg.1_Silent_p.F180F	NM_016111	NP_057195	Q9Y4R8	TELO2_HUMAN	TEL2, telomere maintenance 2, homolog	180						chromosome, telomeric region|cytoplasm|membrane|nucleus	protein binding				0		Hepatocellular(780;0.219)				CCGAGTTCTTCCCCCAGAACT	0.672													25	13	---	---	---	---	PASS
EME2	197342	broad.mit.edu	37	16	1825229	1825229	+	Intron	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:1825229C>A	uc002cmq.1	+						MRPS34_uc002cmn.2_5'Flank|MRPS34_uc002cmo.2_5'Flank|MRPS34_uc002cmp.1_5'Flank|EME2_uc010brw.1_Intron	NM_001010865	NP_001010865	A4GXA9	EME2_HUMAN	essential meiotic endonuclease 1 homolog 2						DNA recombination|DNA repair	nucleus	DNA binding|endonuclease activity			lung(1)|central_nervous_system(1)|pancreas(1)	3						CAGCTGATCCCACTTCTCCAG	0.667								Direct_reversal_of_damage|Homologous_recombination					4	35	---	---	---	---	PASS
ZNF598	90850	broad.mit.edu	37	16	2051706	2051706	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2051706G>A	uc002cof.1	-						ZNF598_uc002coe.1_Intron	NM_178167	NP_835461	Q86UK7	ZN598_HUMAN	zinc finger protein 598							intracellular	zinc ion binding			lung(1)|breast(1)	2						CGACCCCTGCGGCCAGCAGAC	0.697													3	1	---	---	---	---	PASS
ZNF598	90850	broad.mit.edu	37	16	2051707	2051707	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2051707G>A	uc002cof.1	-						ZNF598_uc002coe.1_Intron	NM_178167	NP_835461	Q86UK7	ZN598_HUMAN	zinc finger protein 598							intracellular	zinc ion binding			lung(1)|breast(1)	2						GACCCCTGCGGCCAGCAGACA	0.697													3	1	---	---	---	---	PASS
CASKIN1	57524	broad.mit.edu	37	16	2236736	2236736	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2236736G>A	uc010bsg.1	-	10	1052	c.1020C>T	c.(1018-1020)TCC>TCT	p.S340S		NM_020764	NP_065815	Q8WXD9	CSKI1_HUMAN	CASK interacting protein 1	340	SH3.				signal transduction	cytoplasm				skin(2)	2						CCTCGCCCAGGGAGGACGGGA	0.667													6	24	---	---	---	---	PASS
CASKIN1	57524	broad.mit.edu	37	16	2239018	2239018	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2239018C>T	uc010bsg.1	-							NM_020764	NP_065815	Q8WXD9	CSKI1_HUMAN	CASK interacting protein 1						signal transduction	cytoplasm				skin(2)	2						CTCCCTGCTACCGGCTCTACC	0.667													25	13	---	---	---	---	PASS
E4F1	1877	broad.mit.edu	37	16	2285582	2285582	+	3'UTR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2285582C>T	uc002cpm.2	+	14					E4F1_uc010bsi.2_3'UTR|E4F1_uc010bsj.2_3'UTR|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						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						AGCATGAGGTCTGCGGGGTCC	0.662													4	4	---	---	---	---	PASS
RNPS1	10921	broad.mit.edu	37	16	2312359	2312359	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2312359G>A	uc002cpt.2	-	6	1142	c.596C>T	c.(595-597)CCC>CTC	p.P199L	RNPS1_uc002cpu.2_Missense_Mutation_p.P199L|RNPS1_uc002cpv.2_Missense_Mutation_p.P22L|RNPS1_uc002cpw.2_Missense_Mutation_p.P199L|RNPS1_uc002cpx.2_Missense_Mutation_p.P176L|RNPS1_uc010uwa.1_RNA	NM_080594	NP_542161	Q15287	RNPS1_HUMAN	RNA-binding protein S1, serine-rich domain	199	Necessary for interaction with PNN and exon-skipping.|Necessary for interaction with the cleaved p110 isoform of CDC2L1.|RRM.				mRNA 3'-end processing|mRNA export from nucleus|nuclear mRNA splicing, via spliceosome|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|termination of RNA polymerase II transcription	cytosol|nuclear speck	mRNA 3'-UTR binding|nucleotide binding|protein binding			ovary(1)	1						GGACAGATGGGGATGCATCCT	0.488													12	43	---	---	---	---	PASS
ABCA3	21	broad.mit.edu	37	16	2376095	2376095	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2376095C>T	uc002cpy.1	-	5	947	c.235G>A	c.(235-237)GAG>AAG	p.E79K	ABCA3_uc010bsk.1_Missense_Mutation_p.E79K|ABCA3_uc010bsl.1_Missense_Mutation_p.E79K|ABCA3_uc002cpz.1_Missense_Mutation_p.E79K	NM_001089	NP_001080	Q99758	ABCA3_HUMAN	ATP-binding cassette, sub-family A member 3	79					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)				TAGGCAAGCTCCCAGGTGTCT	0.592													30	6	---	---	---	---	PASS
NTN3	4917	broad.mit.edu	37	16	2522450	2522450	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:2522450C>T	uc002cqj.2	+	1	951	c.748C>T	c.(748-750)CAG>TAG	p.Q250*	TBC1D24_uc002cqk.2_5'Flank|TBC1D24_uc002cql.2_5'Flank	NM_006181	NP_006172	O00634	NET3_HUMAN	netrin 3 precursor	250	Laminin N-terminal.				axon guidance|muscle cell differentiation|positive regulation of muscle cell differentiation	proteinaceous extracellular matrix				central_nervous_system(1)	1						CACCGACCTCCAGGTGGGCGG	0.667													13	17	---	---	---	---	PASS
ZSCAN10	84891	broad.mit.edu	37	16	3140621	3140621	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:3140621C>T	uc002ctv.1	-	5	737	c.649G>A	c.(649-651)GAG>AAG	p.E217K	ZSCAN10_uc002cty.1_5'UTR|ZSCAN10_uc002ctw.1_Missense_Mutation_p.E135K|ZSCAN10_uc002ctx.1_Missense_Mutation_p.E145K	NM_032805	NP_116194	Q96SZ4	ZSC10_HUMAN	zinc finger and SCAN domain containing 10	217					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						TTAAATTCCTCCTTGTCTGGG	0.562													7	24	---	---	---	---	PASS
ZSCAN10	84891	broad.mit.edu	37	16	3140622	3140622	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:3140622C>T	uc002ctv.1	-	5	736	c.648G>A	c.(646-648)AAG>AAA	p.K216K	ZSCAN10_uc002cty.1_5'UTR|ZSCAN10_uc002ctw.1_Silent_p.K134K|ZSCAN10_uc002ctx.1_Silent_p.K144K	NM_032805	NP_116194	Q96SZ4	ZSC10_HUMAN	zinc finger and SCAN domain containing 10	216					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						TAAATTCCTCCTTGTCTGGGG	0.562													7	23	---	---	---	---	PASS
ZNF213	7760	broad.mit.edu	37	16	3188510	3188510	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:3188510C>T	uc010uws.1	+	3	938	c.491C>T	c.(490-492)CCG>CTG	p.P164L	ZNF213_uc002cud.2_RNA|ZNF213_uc010btf.2_3'UTR|ZNF213_uc010bth.2_Missense_Mutation_p.P164L|ZNF213_uc010uwt.1_Missense_Mutation_p.P164L	NM_004220	NP_004211	O14771	ZN213_HUMAN	zinc finger protein 213	164					viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0						CGGAGGCGGCCGTCTGTTCCC	0.687													8	5	---	---	---	---	PASS
OR1F1	4992	broad.mit.edu	37	16	3254963	3254963	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:3254963C>T	uc010uwu.1	+	1	717	c.717C>T	c.(715-717)TCC>TCT	p.S239S		NM_012360	NP_036492	O43749	OR1F1_HUMAN	olfactory receptor, family 1, subfamily F,	239	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						AAGCCTTCTCCACCTGTGGTT	0.493													51	25	---	---	---	---	PASS
ZNF75A	7627	broad.mit.edu	37	16	3366913	3366913	+	Silent	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:3366913A>G	uc002cut.3	+	5	628	c.102A>G	c.(100-102)GCA>GCG	p.A34A	ZNF75A_uc002cuv.3_RNA	NM_153028	NP_694573	Q96N20	ZN75A_HUMAN	zinc finger protein 75a	34	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(1)	1						ATTTGACAGCATTGTTTGTGC	0.443													7	44	---	---	---	---	PASS
BTBD12	84464	broad.mit.edu	37	16	3639381	3639381	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:3639381G>A	uc002cvp.2	-	12	4885	c.4258C>T	c.(4258-4260)CCA>TCA	p.P1420S		NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	1420	Interaction with MUS81.|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						ATTGGAATTGGGGGGTCACTG	0.627								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				18	41	---	---	---	---	PASS
BTBD12	84464	broad.mit.edu	37	16	3658604	3658604	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:3658604T>C	uc002cvp.2	-	2	989	c.362A>G	c.(361-363)AAA>AGA	p.K121R	BTBD12_uc002cvq.1_Missense_Mutation_p.K121R	NM_032444	NP_115820	Q8IY92	SLX4_HUMAN	BTB (POZ) domain containing 12	121	Interaction with C20orf94, ERCC4 and MSH2.				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						CCTTTGCTTTTTAGTCCTAGG	0.542								Direct_reversal_of_damage|Homologous_recombination	Fanconi_Anemia				14	29	---	---	---	---	PASS
CORO7	79585	broad.mit.edu	37	16	4410973	4410973	+	Missense_Mutation	SNP	G	A	A	rs140152390		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:4410973G>A	uc002cwh.3	-	19	2008	c.1888C>T	c.(1888-1890)CGG>TGG	p.R630W	CORO7_uc002cwe.2_RNA|CORO7_uc002cwf.2_Missense_Mutation_p.R630W|CORO7_uc002cwg.3_Missense_Mutation_p.R410W|CORO7_uc010uxh.1_Missense_Mutation_p.R612W|CORO7_uc010uxi.1_Missense_Mutation_p.R545W|CORO7_uc002cwi.1_Missense_Mutation_p.R410W|CORO7_uc010uxj.1_RNA	NM_024535	NP_078811	P57737	CORO7_HUMAN	coronin 7	630	WD 6.					cytoplasmic membrane-bounded vesicle|cytosol|Golgi membrane|integral to membrane of membrane fraction|soluble fraction					0						AGCTTCAGCCGATCAGCTCCA	0.443													22	20	---	---	---	---	PASS
SEPT12	124404	broad.mit.edu	37	16	4833651	4833651	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:4833651C>T	uc002cxq.2	-	6	770	c.629G>A	c.(628-630)AGG>AAG	p.R210K	SEPT12_uc002cxr.2_Missense_Mutation_p.R164K|SEPT12_uc010bty.2_RNA	NM_144605	NP_653206	Q8IYM1	SEP12_HUMAN	septin 12 isoform 2	210					cell cycle|cell division	cleavage furrow|midbody|perinuclear region of cytoplasm|septin complex|spindle|stress fiber	GDP binding|GTP binding|phosphatidylinositol binding|protein homodimerization activity			skin(1)	1						CCAGATCACCCTGCGCCTGAA	0.657													12	35	---	---	---	---	PASS
UBN1	29855	broad.mit.edu	37	16	4924219	4924219	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:4924219C>T	uc002cyb.2	+	15	2147	c.1808C>T	c.(1807-1809)TCT>TTT	p.S603F	UBN1_uc010uxw.1_Missense_Mutation_p.S603F|UBN1_uc002cyc.2_Missense_Mutation_p.S603F	NM_001079514	NP_001072982	Q9NPG3	UBN1_HUMAN	ubinuclein 1	603					chromatin modification|interspecies interaction between organisms|regulation of transcription from RNA polymerase II promoter	PML body|tight junction	DNA binding|sequence-specific DNA binding transcription factor activity			skin(2)	2						TAGGAATCGTCTACGAAGCCT	0.458													66	43	---	---	---	---	PASS
C16orf89	146556	broad.mit.edu	37	16	5112524	5112524	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:5112524G>A	uc010bud.2	-	2	462	c.374C>T	c.(373-375)CCG>CTG	p.P125L	ALG1_uc002cyj.2_Intron|C16orf89_uc002cyk.3_Missense_Mutation_p.P125L	NM_152459	NP_689672	Q6UX73	CP089_HUMAN	hypothetical protein LOC146556 isoform 1	87						extracellular region				ovary(1)|skin(1)	2						CAGGCTCAGCGGCTGCAGCAG	0.562													24	8	---	---	---	---	PASS
GRIN2A	2903	broad.mit.edu	37	16	9858202	9858202	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:9858202G>A	uc002czo.3	-	13	3747	c.3199C>T	c.(3199-3201)CGG>TGG	p.R1067W	GRIN2A_uc010uym.1_Missense_Mutation_p.R1067W|GRIN2A_uc010uyn.1_Missense_Mutation_p.R910W|GRIN2A_uc002czr.3_Missense_Mutation_p.R1067W	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	1067	Cytoplasmic (Potential).				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)	CACGTGGCCCGATTTGACGTT	0.498													62	49	---	---	---	---	PASS
GRIN2A	2903	broad.mit.edu	37	16	9858517	9858517	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:9858517C>T	uc002czo.3	-	13	3432	c.2884G>A	c.(2884-2886)GAA>AAA	p.E962K	GRIN2A_uc010uym.1_Missense_Mutation_p.E962K|GRIN2A_uc010uyn.1_Missense_Mutation_p.E805K|GRIN2A_uc002czr.3_Missense_Mutation_p.E962K	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	962	Cytoplasmic (Potential).				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	p.E962K(1)		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)	GTTTGGAGTTCGTTCATGTTG	0.438													22	48	---	---	---	---	PASS
GRIN2A	2903	broad.mit.edu	37	16	9934562	9934562	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:9934562C>T	uc002czo.3	-	7	2141	c.1593G>A	c.(1591-1593)ACG>ACA	p.T531T	GRIN2A_uc010uym.1_Silent_p.T531T|GRIN2A_uc010uyn.1_Silent_p.T374T|GRIN2A_uc002czr.3_Silent_p.T531T	NM_001134407	NP_001127879	Q12879	NMDE1_HUMAN	N-methyl-D-aspartate receptor subunit 2A isoform	531	Extracellular (Potential).				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)	CACTGATTCCCGTTTCCACAA	0.468													29	20	---	---	---	---	PASS
TEKT5	146279	broad.mit.edu	37	16	10788716	10788716	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:10788716C>T	uc002czz.1	-	1	87	c.15G>A	c.(13-15)GGG>GGA	p.G5G		NM_144674	NP_653275	Q96M29	TEKT5_HUMAN	tektin 5	5					microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(2)	2						TCTGAGTAGTCCCAAGAAACT	0.547													20	12	---	---	---	---	PASS
TEKT5	146279	broad.mit.edu	37	16	10788717	10788717	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:10788717C>T	uc002czz.1	-	1	86	c.14G>A	c.(13-15)GGG>GAG	p.G5E		NM_144674	NP_653275	Q96M29	TEKT5_HUMAN	tektin 5	5					microtubule cytoskeleton organization	cilium axoneme|flagellar axoneme|microtubule				ovary(2)	2						CTGAGTAGTCCCAAGAAACTC	0.552													20	12	---	---	---	---	PASS
NUBP1	4682	broad.mit.edu	37	16	10855685	10855685	+	Silent	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:10855685C>A	uc002daa.1	+	9	812	c.789C>A	c.(787-789)CTC>CTA	p.L263L	FAM18A_uc010uyr.1_Intron|FAM18A_uc010uys.1_Intron|FAM18A_uc010uyt.1_Intron|FAM18A_uc010bun.2_Intron|FAM18A_uc010uyu.1_Intron|FAM18A_uc002dad.3_Intron|NUBP1_uc010bum.1_Silent_p.L128L|NUBP1_uc002dab.1_Silent_p.L252L	NM_002484	NP_002475	P53384	NUBP1_HUMAN	nucleotide binding protein 1	263					cell growth|cellular iron ion homeostasis|iron-sulfur cluster assembly	cytosol	4 iron, 4 sulfur cluster binding|ATP binding|metal ion binding|nucleoside-triphosphatase activity|protein binding			ovary(1)|skin(1)	2						AGGTCCCTCTCCTCGGCAGAG	0.622													13	7	---	---	---	---	PASS
TNP2	7142	broad.mit.edu	37	16	11362727	11362727	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:11362727C>T	uc002das.2	-	1	434	c.393G>A	c.(391-393)CGG>CGA	p.R131R	C16orf75_uc002daq.1_Intron	NM_005425	NP_005416	Q05952	STP2_HUMAN	transition protein 2 (during histone to	131					cell differentiation|multicellular organismal development|spermatogenesis	nucleosome|nucleus	DNA binding				0						TACCTGAGCTCCGCGTCTTGG	0.552													20	6	---	---	---	---	PASS
LITAF	9516	broad.mit.edu	37	16	11650521	11650521	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:11650521G>A	uc002daz.2	-	2	299	c.66C>T	c.(64-66)TCC>TCT	p.S22S	LITAF_uc002dba.2_Silent_p.S22S|LITAF_uc002dbb.2_Silent_p.S22S|LITAF_uc002dbc.2_Silent_p.S22S|LITAF_uc002dbd.2_Silent_p.S22S|LITAF_uc002dbe.3_Silent_p.S22S	NM_004862	NP_004853	Q99732	LITAF_HUMAN	lipopolysaccharide-induced TNF-alpha factor	22	WW-binding.				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						TCTCTTCATAGGATGGAGGTG	0.547													9	15	---	---	---	---	PASS
MYH11	4629	broad.mit.edu	37	16	15829337	15829337	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:15829337C>T	uc002ddy.2	-	26	3499	c.3392G>A	c.(3391-3393)CGG>CAG	p.R1131Q	MYH11_uc002ddv.2_Missense_Mutation_p.R1138Q|MYH11_uc002ddw.2_Missense_Mutation_p.R1131Q|MYH11_uc002ddx.2_Missense_Mutation_p.R1138Q|MYH11_uc010bvg.2_Missense_Mutation_p.R963Q	NM_002474	NP_002465	P35749	MYH11_HUMAN	smooth muscle myosin heavy chain 11 isoform	1131	Potential.				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						CCTGGCGGCCCGCTCTGAGTC	0.582			T	CBFB	AML								51	30	---	---	---	---	PASS
XYLT1	64131	broad.mit.edu	37	16	17353133	17353133	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:17353133G>A	uc002dfa.2	-	3	710	c.625C>T	c.(625-627)CCT>TCT	p.P209S		NM_022166	NP_071449	Q86Y38	XYLT1_HUMAN	xylosyltransferase I	209	Lumenal (Potential).				glycosaminoglycan biosynthetic process	endoplasmic reticulum membrane|extracellular region|Golgi membrane|integral to membrane	acetylglucosaminyltransferase activity|protein xylosyltransferase activity			ovary(4)	4						CCTTTCCCAGGGAATGTATGT	0.577													20	68	---	---	---	---	PASS
ARL6IP1	23204	broad.mit.edu	37	16	18810056	18810056	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:18810056G>A	uc002dfl.1	-	2	206	c.137C>T	c.(136-138)CCT>CTT	p.P46L	ARL6IP1_uc010van.1_Missense_Mutation_p.P17L|ARL6IP1_uc010bvz.1_RNA	NM_015161	NP_055976	Q15041	AR6P1_HUMAN	ADP-ribosylation factor-like 6 interacting	46	Helical; (Potential).					integral to membrane	protein binding				0						CATGATGGCAGGTGGAAACCA	0.433													26	67	---	---	---	---	PASS
ARL6IP1	23204	broad.mit.edu	37	16	18810057	18810057	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:18810057G>A	uc002dfl.1	-	2	205	c.136C>T	c.(136-138)CCT>TCT	p.P46S	ARL6IP1_uc010van.1_Missense_Mutation_p.P17S|ARL6IP1_uc010bvz.1_RNA	NM_015161	NP_055976	Q15041	AR6P1_HUMAN	ADP-ribosylation factor-like 6 interacting	46	Helical; (Potential).					integral to membrane	protein binding				0						ATGATGGCAGGTGGAAACCAG	0.438													26	67	---	---	---	---	PASS
SMG1	23049	broad.mit.edu	37	16	18844347	18844347	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:18844347G>A	uc002dfm.2	-	51	9070	c.8707C>T	c.(8707-8709)CTA>TTA	p.L2903L	SMG1_uc010bwb.2_Silent_p.L2763L|SMG1_uc010bwa.2_Silent_p.L1634L	NM_015092	NP_055907	Q96Q15	SMG1_HUMAN	PI-3-kinase-related kinase SMG-1	2903					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						GATTCCACTAGAGTCTGCAGG	0.468													37	125	---	---	---	---	PASS
TMC7	79905	broad.mit.edu	37	16	19068005	19068005	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:19068005C>T	uc002dfq.2	+	14	2143	c.2013C>T	c.(2011-2013)TTC>TTT	p.F671F	TMC7_uc002dfp.2_Silent_p.F671F|TMC7_uc010vap.1_Silent_p.F561F	NM_024847	NP_079123	Q7Z402	TMC7_HUMAN	transmembrane channel-like 7 isoform a	671	Helical; (Potential).					integral to membrane				skin(2)|ovary(1)	3						CAGTTCCTTTCTTCATGATTA	0.577													24	22	---	---	---	---	PASS
COQ7	10229	broad.mit.edu	37	16	19083408	19083408	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:19083408A>T	uc002dfr.2	+	2	292	c.232A>T	c.(232-234)AGC>TGC	p.S78C	COQ7_uc002dfs.2_Missense_Mutation_p.S64C	NM_016138	NP_057222	Q99807	COQ7_HUMAN	COQ7 protein	78	1.|2 X approximate tandem repeats.				ubiquinone biosynthetic process	mitochondrial inner membrane|nucleus	oxidoreductase activity|transition metal ion binding			skin(1)	1						GGGTCGGACCAGCGTCGGGCC	0.557											OREG0023656	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	48	---	---	---	---	PASS
SYT17	51760	broad.mit.edu	37	16	19195301	19195301	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:19195301C>T	uc002dfw.2	+	5	1114	c.783C>T	c.(781-783)ACC>ACT	p.T261T	SYT17_uc002dfx.2_Silent_p.T200T|SYT17_uc002dfy.2_Silent_p.T257T|SYT17_uc002dfv.1_Silent_p.T200T	NM_016524	NP_057608	Q9BSW7	SYT17_HUMAN	B/K protein	261	C2 1.					membrane|synaptic vesicle	transporter activity			ovary(1)	1						AGCGCTACACCTTCGAGATCC	0.557													27	78	---	---	---	---	PASS
GP2	2813	broad.mit.edu	37	16	20322539	20322539	+	3'UTR	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:20322539G>A	uc002dgv.2	-	12					GP2_uc002dgw.2_3'UTR|GP2_uc002dgx.2_3'UTR|GP2_uc002dgy.2_3'UTR	NM_001007240	NP_001007241	P55259	GP2_HUMAN	zymogen granule membrane glycoprotein 2 isoform							anchored to membrane|extracellular region|plasma membrane				ovary(3)|skin(1)	4						ATGCTCAGCGGAGCTCTCAGA	0.512													22	10	---	---	---	---	PASS
ACSM2A	123876	broad.mit.edu	37	16	20471551	20471551	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:20471551G>A	uc010bwe.2	+	3	354	c.115G>A	c.(115-117)GAA>AAA	p.E39K	ACSM2A_uc010bwd.1_RNA|ACSM2A_uc010vax.1_Intron|ACSM2A_uc002dhf.3_Missense_Mutation_p.E39K|ACSM2A_uc002dhg.3_Missense_Mutation_p.E39K|ACSM2A_uc010vay.1_Intron	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	39					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						GGGCCACCAGGAAGTGCCGGC	0.507													11	14	---	---	---	---	PASS
ACSM2A	123876	broad.mit.edu	37	16	20494415	20494415	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:20494415C>T	uc010bwe.2	+	14	1784	c.1545C>T	c.(1543-1545)TTC>TTT	p.F515F	ACSM2A_uc002dhf.3_Silent_p.F515F|ACSM2A_uc002dhg.3_Silent_p.F515F|ACSM2A_uc010vay.1_Silent_p.F436F|ACSM2A_uc002dhh.3_Silent_p.F145F	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	515					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						CCTCGCAGTTCCTGTCCCATG	0.507													25	67	---	---	---	---	PASS
ACSM2A	123876	broad.mit.edu	37	16	20494431	20494431	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:20494431G>A	uc010bwe.2	+	14	1800	c.1561G>A	c.(1561-1563)GAA>AAA	p.E521K	ACSM2A_uc002dhf.3_Missense_Mutation_p.E521K|ACSM2A_uc002dhg.3_Missense_Mutation_p.E521K|ACSM2A_uc010vay.1_Missense_Mutation_p.E442K|ACSM2A_uc002dhh.3_Missense_Mutation_p.E151K	NM_001010845	NP_001010845	Q08AH3	ACS2A_HUMAN	acyl-CoA synthetase medium-chain family member	521					fatty acid metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|metal ion binding			skin(2)|breast(1)	3						CCATGACCCAGAACAGCTCAC	0.512													28	54	---	---	---	---	PASS
ACSM2B	348158	broad.mit.edu	37	16	20548624	20548624	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:20548624G>A	uc002dhj.3	-	15	1900	c.1690C>T	c.(1690-1692)CGA>TGA	p.R564*	ACSM2B_uc002dhk.3_Nonsense_Mutation_p.R564*	NM_182617	NP_872423	Q68CK6	ACS2B_HUMAN	acyl-CoA synthetase medium-chain family member	564					fatty acid metabolic process|xenobiotic metabolic process	mitochondrial matrix	ATP binding|butyrate-CoA ligase activity|CoA-ligase activity|metal ion binding			skin(3)|ovary(1)|central_nervous_system(1)	5						TCCTTGTCTCGAAGTTTGGTT	0.463													48	136	---	---	---	---	PASS
DCUN1D3	123879	broad.mit.edu	37	16	20873630	20873630	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:20873630C>T	uc002dhz.2	-	2	372	c.231G>A	c.(229-231)AGG>AGA	p.R77R	ERI2_uc002dht.3_Intron	NM_173475	NP_775746	Q8IWE4	DCNL3_HUMAN	DCN1, defective in cullin neddylation 1, domain	77					negative regulation of cell growth|negative regulation of S phase of mitotic cell cycle|positive regulation of apoptosis|response to gamma radiation|response to UV-C	perinuclear region of cytoplasm				ovary(2)	2				GBM - Glioblastoma multiforme(48;0.249)		ACTTGGACTCCCTCCCAGCAT	0.572													29	76	---	---	---	---	PASS
DNAH3	55567	broad.mit.edu	37	16	20966324	20966324	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:20966324C>T	uc010vbe.1	-	55	10882	c.10882G>A	c.(10882-10884)GGA>AGA	p.G3628R	DNAH3_uc010vbd.1_Missense_Mutation_p.G1063R	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	3628	AAA 6 (By similarity).				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)		ATTTTGATTCCATTCTGGAGA	0.483													10	42	---	---	---	---	PASS
DNAH3	55567	broad.mit.edu	37	16	20975616	20975616	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:20975616G>A	uc010vbe.1	-	53	9590	c.9590C>T	c.(9589-9591)ACC>ATC	p.T3197I	DNAH3_uc010vbd.1_Missense_Mutation_p.T632I	NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	3197	AAA 5 (By similarity).				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)		ACCCAAGGGGGTGATCATGAA	0.478													11	34	---	---	---	---	PASS
DNAH3	55567	broad.mit.edu	37	16	21049287	21049287	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:21049287G>A	uc010vbe.1	-	34	4746	c.4746C>T	c.(4744-4746)ATC>ATT	p.I1582I		NM_017539	NP_060009	Q8TD57	DYH3_HUMAN	dynein, axonemal, heavy chain 3	1582	AAA 1 (By similarity).				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)		AGGTCGCAACGATCTTCTGGG	0.552													7	9	---	---	---	---	PASS
ZP2	7783	broad.mit.edu	37	16	21208822	21208822	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:21208822T>A	uc002dii.2	-	19	2217	c.2217A>T	c.(2215-2217)AAA>AAT	p.K739N	ZP2_uc010bwn.1_Missense_Mutation_p.K769N	NM_003460	NP_003451	Q05996	ZP2_HUMAN	zona pellucida glycoprotein 2 preproprotein	739	Cytoplasmic (Potential).				binding of sperm to zona pellucida|intracellular protein transport	endoplasmic reticulum|Golgi apparatus|integral to membrane|multivesicular body|plasma membrane|proteinaceous extracellular matrix|stored secretory granule	acrosin binding|coreceptor activity			central_nervous_system(2)|ovary(1)	3				GBM - Glioblastoma multiforme(48;0.0573)		ACACAGTCCTTTTCTCGTACA	0.438													15	33	---	---	---	---	PASS
OTOA	146183	broad.mit.edu	37	16	21689934	21689934	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:21689934C>T	uc002djh.2	+						uc002diq.3_Intron	NM_144672	NP_653273	Q7RTW8	OTOAN_HUMAN	otoancorin isoform 1						sensory perception of sound	anchored to membrane|apical plasma membrane|proteinaceous extracellular matrix				ovary(1)|central_nervous_system(1)|skin(1)	3				GBM - Glioblastoma multiforme(48;0.0414)		AGGGTAAGTCCTGAGGGAAGA	0.448													10	24	---	---	---	---	PASS
VWA3A	146177	broad.mit.edu	37	16	22161125	22161125	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:22161125T>A	uc010vbq.1	+	29	3098	c.3002T>A	c.(3001-3003)TTT>TAT	p.F1001Y	VWA3A_uc010bxd.2_RNA|VWA3A_uc002dkg.3_Missense_Mutation_p.F79Y|VWA3A_uc010bxe.1_Missense_Mutation_p.F103Y	NM_173615	NP_775886	A6NCI4	VWA3A_HUMAN	von Willebrand factor A domain containing 3A	1001	VWFA 2.					extracellular region				skin(1)	1				GBM - Glioblastoma multiforme(48;0.0439)		CTGCTCAGCTTTGCAGAGAGC	0.532													4	21	---	---	---	---	PASS
GGA2	23062	broad.mit.edu	37	16	23494328	23494328	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:23494328G>A	uc002dlq.2	-						GGA2_uc010bxo.1_Intron	NM_015044	NP_055859	Q9UJY4	GGA2_HUMAN	ADP-ribosylation factor binding protein 2						intracellular protein transport|vesicle-mediated transport	clathrin adaptor complex|clathrin-coated vesicle|endosome membrane|trans-Golgi network	ADP-ribosylation factor binding			ovary(1)|central_nervous_system(1)	2				GBM - Glioblastoma multiforme(48;0.0386)		TACACGACCTGAAAGAGCAGA	0.587													6	19	---	---	---	---	PASS
PLK1	5347	broad.mit.edu	37	16	23700940	23700940	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:23700940C>T	uc002dlz.1	+	9	1604	c.1551C>T	c.(1549-1551)ACC>ACT	p.T517T		NM_005030	NP_005021	P53350	PLK1_HUMAN	polo-like kinase 1	517	POLO box 2.				anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cell proliferation|G2/M transition DNA damage checkpoint|G2/M transition of mitotic cell cycle|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic prophase|negative regulation of cyclin-dependent protein kinase activity|peptidyl-serine phosphorylation|positive regulation of peptidyl-threonine phosphorylation|positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle|protein destabilization|protein localization to chromatin|protein ubiquitination|regulation of mitotic anaphase|regulation of protein binding	centrosome|condensed nuclear chromosome outer kinetochore|cytosol|nucleoplasm|spindle microtubule|spindle midzone|spindle pole	anaphase-promoting complex binding|ATP binding|polo kinase kinase activity|protein kinase binding			lung(1)|skin(1)	2				GBM - Glioblastoma multiforme(48;0.0156)		GGTTCCGCACCCGCAGCGCCA	0.627													4	11	---	---	---	---	PASS
PRKCB	5579	broad.mit.edu	37	16	24196821	24196821	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:24196821C>T	uc002dmd.2	+	15	1852	c.1655C>T	c.(1654-1656)TCC>TTC	p.S552F	PRKCB_uc002dme.2_Missense_Mutation_p.S552F	NM_212535	NP_997700	P05771	KPCB_HUMAN	protein kinase C, beta isoform 1	552	Protein kinase.				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)	CTCTTCCAATCCATCATGGAA	0.502													12	45	---	---	---	---	PASS
RBBP6	5930	broad.mit.edu	37	16	24567164	24567164	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:24567164C>T	uc002dmh.2	+	6	1500	c.460C>T	c.(460-462)CCA>TCA	p.P154S	RBBP6_uc010vcb.1_Missense_Mutation_p.P21S|RBBP6_uc002dmi.2_Missense_Mutation_p.P154S|RBBP6_uc010bxr.2_Missense_Mutation_p.P154S|RBBP6_uc002dmk.2_Missense_Mutation_p.P21S	NM_006910	NP_008841	Q7Z6E9	RBBP6_HUMAN	retinoblastoma-binding protein 6 isoform 1	154					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)		ACCTCTAGGTCCACCACCTCC	0.398													8	32	---	---	---	---	PASS
TNRC6A	27327	broad.mit.edu	37	16	24831651	24831651	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:24831651T>A	uc002dmm.2	+	22	5386	c.5272T>A	c.(5272-5274)TGG>AGG	p.W1758R	TNRC6A_uc010bxs.2_Missense_Mutation_p.W1505R|TNRC6A_uc002dmn.2_Missense_Mutation_p.W1456R|TNRC6A_uc002dmo.2_Missense_Mutation_p.W1397R|TNRC6A_uc002dmr.2_5'Flank	NM_014494	NP_055309	Q8NDV7	TNR6A_HUMAN	trinucleotide repeat containing 6A	1758	Sufficient for interaction with EIF2C2.				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)		AGGTGGAGGATGGGGAAATTC	0.502													15	36	---	---	---	---	PASS
IL4R	3566	broad.mit.edu	37	16	27363934	27363934	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:27363934C>T	uc002don.2	+	7	829	c.587C>T	c.(586-588)TCC>TTC	p.S196F	IL4R_uc002dom.2_Missense_Mutation_p.S196F|IL4R_uc002dop.3_Missense_Mutation_p.S181F|IL4R_uc010bxy.2_Missense_Mutation_p.S196F|IL4R_uc002doo.2_Missense_Mutation_p.S36F	NM_000418	NP_000409	P24394	IL4RA_HUMAN	interleukin 4 receptor alpha chain isoform a	196	Extracellular (Potential).|Fibronectin type-III.				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						TCTGGGATTTCCTACAGGGCA	0.557													20	37	---	---	---	---	PASS
IL21R	50615	broad.mit.edu	37	16	27460557	27460557	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:27460557G>A	uc002doq.1	+	9	1803	c.1570G>A	c.(1570-1572)GTG>ATG	p.V524M	IL21R_uc002dor.1_Missense_Mutation_p.V524M|IL21R_uc002dos.1_Missense_Mutation_p.V524M|uc002dot.2_RNA	NM_181078	NP_851564	Q9HBE5	IL21R_HUMAN	interleukin 21 receptor precursor	524	Cytoplasmic (Potential).				natural killer cell activation	integral to membrane	interleukin-21 receptor activity			ovary(2)|lung(1)|breast(1)	4						CCGCCAGTGGGTGGTCATTCC	0.652			T	BCL6	NHL								4	9	---	---	---	---	PASS
GTF3C1	2975	broad.mit.edu	37	16	27506152	27506152	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:27506152G>A	uc002dov.1	-	16	2750	c.2710C>T	c.(2710-2712)CTC>TTC	p.L904F	GTF3C1_uc002dou.2_Missense_Mutation_p.L904F	NM_001520	NP_001511	Q12789	TF3C1_HUMAN	general transcription factor IIIC, polypeptide	904						transcription factor TFIIIC complex	DNA binding|protein binding			ovary(2)|pancreas(1)|breast(1)|skin(1)	5						TCGCTGACGAGAGCCCAGCCA	0.532													7	24	---	---	---	---	PASS
RABEP2	79874	broad.mit.edu	37	16	28925737	28925737	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:28925737G>A	uc002drq.2	-	5	762	c.714C>T	c.(712-714)TCC>TCT	p.S238S	uc010vct.1_Intron|RABEP2_uc010vdf.1_Silent_p.S167S|RABEP2_uc010byn.2_Silent_p.S238S|RABEP2_uc002drr.2_Silent_p.S238S	NM_024816	NP_079092	Q9H5N1	RABE2_HUMAN	rabaptin, RAB GTPase binding effector protein 2	238					endocytosis|protein transport	early endosome	growth factor activity|GTPase activator activity			ovary(1)|breast(1)|skin(1)	3						CACCGCCAAGGGAGAAGGAGG	0.682													6	16	---	---	---	---	PASS
MVP	9961	broad.mit.edu	37	16	29855860	29855860	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:29855860C>T	uc002dui.2	+	11	1765	c.1681C>T	c.(1681-1683)CTC>TTC	p.L561F	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|MVP_uc002duj.2_Missense_Mutation_p.L561F|MVP_uc010vea.1_Missense_Mutation_p.L155F	NM_005115	NP_005106	Q14764	MVP_HUMAN	major vault protein	561					mRNA transport|protein transport|response to drug|transmembrane transport	cytoplasm|nuclear pore|ribonucleoprotein complex	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4						GACGGCCAAGCTCTTTTCAGT	0.547													24	33	---	---	---	---	PASS
TAOK2	9344	broad.mit.edu	37	16	29998422	29998422	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:29998422C>T	uc002dva.1	+	16	3612	c.2829C>T	c.(2827-2829)CTC>CTT	p.L943L	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TAOK2_uc002dvb.1_Intron|TAOK2_uc002dvc.1_Intron|TAOK2_uc010bzm.1_Silent_p.L950L|TAOK2_uc002dvd.1_Silent_p.L770L	NM_016151	NP_057235	Q9UL54	TAOK2_HUMAN	TAO kinase 2 isoform 2	943	Leu-rich.				actin cytoskeleton organization|activation of MAPKK activity|apoptosis|cell migration|focal adhesion assembly|positive regulation of JNK cascade|protein targeting to membrane|regulation of cell growth|regulation of cell shape|response to stress	cytoplasmic vesicle membrane|cytoskeleton|dendrite|integral to membrane|nucleolus	ATP binding|protein serine/threonine kinase activity	p.S943S(1)		ovary(1)	1						CCAGCCAGCTCCCTGGACTCC	0.657													21	54	---	---	---	---	PASS
TAOK2	9344	broad.mit.edu	37	16	29998423	29998423	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:29998423C>T	uc002dva.1	+	16	3613	c.2830C>T	c.(2830-2832)CCT>TCT	p.P944S	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TAOK2_uc002dvb.1_Intron|TAOK2_uc002dvc.1_Intron|TAOK2_uc010bzm.1_Missense_Mutation_p.P951S|TAOK2_uc002dvd.1_Missense_Mutation_p.P771S	NM_016151	NP_057235	Q9UL54	TAOK2_HUMAN	TAO kinase 2 isoform 2	944	Leu-rich.				actin cytoskeleton organization|activation of MAPKK activity|apoptosis|cell migration|focal adhesion assembly|positive regulation of JNK cascade|protein targeting to membrane|regulation of cell growth|regulation of cell shape|response to stress	cytoplasmic vesicle membrane|cytoskeleton|dendrite|integral to membrane|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						CAGCCAGCTCCCTGGACTCCT	0.652													22	53	---	---	---	---	PASS
TAOK2	9344	broad.mit.edu	37	16	29998717	29998717	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:29998717C>T	uc002dva.1	+	16	3907	c.3124C>T	c.(3124-3126)CCC>TCC	p.P1042S	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|TAOK2_uc002dvb.1_Intron|TAOK2_uc002dvc.1_Intron|TAOK2_uc010bzm.1_Missense_Mutation_p.P1049S|TAOK2_uc002dvd.1_Missense_Mutation_p.P869S	NM_016151	NP_057235	Q9UL54	TAOK2_HUMAN	TAO kinase 2 isoform 2	1042	Leu-rich.				actin cytoskeleton organization|activation of MAPKK activity|apoptosis|cell migration|focal adhesion assembly|positive regulation of JNK cascade|protein targeting to membrane|regulation of cell growth|regulation of cell shape|response to stress	cytoplasmic vesicle membrane|cytoskeleton|dendrite|integral to membrane|nucleolus	ATP binding|protein serine/threonine kinase activity			ovary(1)	1						CATGGGTGTTCCCCTGGGCCT	0.687													5	4	---	---	---	---	PASS
GDPD3	79153	broad.mit.edu	37	16	30123683	30123683	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:30123683G>A	uc002dwp.2	-	5	506	c.427C>T	c.(427-429)CCA>TCA	p.P143S	uc002dtf.2_Intron|BOLA2_uc010bzb.1_Intron|GDPD3_uc002dwq.2_Missense_Mutation_p.P81S|LOC100271831_uc010vei.1_5'Flank	NM_024307	NP_077283	Q7L5L3	GDPD3_HUMAN	glycerophosphodiester phosphodiesterase domain	143	Extracellular (Potential).|GDPD.				glycerol metabolic process|lipid metabolic process	integral to membrane	glycerophosphodiester phosphodiesterase activity|metal ion binding				0						GGTGTCCTTGGAAACCTCTGG	0.617											OREG0023731	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	9	31	---	---	---	---	PASS
SEPT1	1731	broad.mit.edu	37	16	30390855	30390855	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:30390855C>T	uc002dxy.2	-	9	848	c.661G>A	c.(661-663)GAA>AAA	p.E221K	SEPT1_uc002dxw.2_5'Flank|SEPT1_uc002dxx.2_Missense_Mutation_p.E46K	NM_052838	NP_443070	Q8WYJ6	SEPT1_HUMAN	septin 1	221					cell cycle|cell division	microtubule organizing center|septin complex	GTP binding|protein binding			ovary(1)	1			Colorectal(24;0.193)			GGGATGCTTTCCTGGAGGGCA	0.637													8	19	---	---	---	---	PASS
ZNF764	92595	broad.mit.edu	37	16	30566770	30566770	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:30566770G>A	uc002dyq.2	-	3	1053	c.972C>T	c.(970-972)TTC>TTT	p.F324F	ZNF764_uc002dyr.1_Silent_p.F323F	NM_033410	NP_219363	Q96H86	ZN764_HUMAN	zinc finger protein 764	324	C2H2-type 6.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						AGCTCTGGCGGAAGCAGCGCC	0.731													5	6	---	---	---	---	PASS
ZNF688	146542	broad.mit.edu	37	16	30581758	30581758	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:30581758C>T	uc002dyt.2	-						ZNF688_uc002dys.2_Intron|uc002dyu.2_5'Flank	NM_145271	NP_660314	P0C7X2	ZN688_HUMAN	zinc finger protein 688 isoform a						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GGGACATCTCCTGGGAAACCG	0.483													11	27	---	---	---	---	PASS
ZNF785	146540	broad.mit.edu	37	16	30594078	30594078	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:30594078G>A	uc002dyw.1	-	3	1099	c.1021C>T	c.(1021-1023)CCC>TCC	p.P341S	uc002dyu.2_RNA|ZNF785_uc002dyv.1_Missense_Mutation_p.P326S|ZNF785_uc010vez.1_Missense_Mutation_p.P306S	NM_152458	NP_689671	A8K8V0	ZN785_HUMAN	zinc finger protein 785	341	C2H2-type 7.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TCCACGCAGGGGAAGGGCCGG	0.672													5	28	---	---	---	---	PASS
SRCAP	10847	broad.mit.edu	37	16	30749570	30749570	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:30749570C>T	uc002dze.1	+	34	8594	c.8209C>T	c.(8209-8211)CGG>TGG	p.R2737W	SRCAP_uc002dzf.2_RNA|SRCAP_uc002dzg.1_Missense_Mutation_p.R2532W	NM_006662	NP_006653	Q6ZRS2	SRCAP_HUMAN	Snf2-related CBP activator protein	2737	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)			AGGGACTGGTCGGCCAGGACA	0.617													15	30	---	---	---	---	PASS
RNF40	9810	broad.mit.edu	37	16	30779730	30779730	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:30779730C>T	uc002dzq.2	+	13	1981	c.1858C>T	c.(1858-1860)CCC>TCC	p.P620S	RNF40_uc010caa.2_Missense_Mutation_p.P620S|RNF40_uc010cab.2_Missense_Mutation_p.P520S|RNF40_uc010vfa.1_5'UTR|RNF40_uc002dzr.2_Missense_Mutation_p.P620S|RNF40_uc010vfb.1_Missense_Mutation_p.P312S|RNF40_uc010vfc.1_5'UTR	NM_014771	NP_055586	O75150	BRE1B_HUMAN	ring finger protein 40	620					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)			ACGGGAAGGTCCCAGCCTAGG	0.622													13	28	---	---	---	---	PASS
RNF40	9810	broad.mit.edu	37	16	30780147	30780147	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:30780147C>T	uc002dzq.2	+						RNF40_uc010caa.2_Intron|RNF40_uc010cab.2_Intron|RNF40_uc010vfa.1_Intron|RNF40_uc002dzr.2_Intron|RNF40_uc010vfb.1_Intron|RNF40_uc010vfc.1_Intron	NM_014771	NP_055586	O75150	BRE1B_HUMAN	ring finger protein 40						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)			TTTCTTCTTCCCTGTGCTATA	0.582													17	31	---	---	---	---	PASS
SETD1A	9739	broad.mit.edu	37	16	30977242	30977242	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:30977242C>T	uc002ead.1	+	8	2726	c.2040C>T	c.(2038-2040)TTC>TTT	p.F680F		NM_014712	NP_055527	O15047	SET1A_HUMAN	SET domain containing 1A	680					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						CCATGTCCTTCCAGATGCAGA	0.627													28	51	---	---	---	---	PASS
ZNF668	79759	broad.mit.edu	37	16	31072431	31072431	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:31072431G>A	uc010caf.2	-	3	2175	c.1818C>T	c.(1816-1818)CCC>CCT	p.P606P	ZNF668_uc002eao.2_Silent_p.P606P	NM_024706	NP_078982	Q96K58	ZN668_HUMAN	zinc finger protein 668	606					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(4)	4						AAGCCACCAGGGGCTCCAGGG	0.672													14	21	---	---	---	---	PASS
ZNF668	79759	broad.mit.edu	37	16	31072432	31072432	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:31072432G>A	uc010caf.2	-	3	2174	c.1817C>T	c.(1816-1818)CCC>CTC	p.P606L	ZNF668_uc002eao.2_Missense_Mutation_p.P606L	NM_024706	NP_078982	Q96K58	ZN668_HUMAN	zinc finger protein 668	606					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			breast(4)	4						AGCCACCAGGGGCTCCAGGGG	0.667													15	22	---	---	---	---	PASS
ITGAM	3684	broad.mit.edu	37	16	31336706	31336706	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:31336706G>A	uc002ebq.2	+	20	2584	c.2486G>A	c.(2485-2487)CGG>CAG	p.R829Q	ITGAM_uc002ebr.2_Missense_Mutation_p.R830Q|ITGAM_uc010can.2_Missense_Mutation_p.R235Q|ITGAM_uc002ebs.1_Missense_Mutation_p.R235Q|ITGAM_uc010vfj.1_RNA	NM_000632	NP_000623	P11215	ITAM_HUMAN	integrin alpha M isoform 2 precursor	829	Extracellular (Potential).				blood coagulation|cell adhesion|integrin-mediated signaling pathway|leukocyte migration	integrin complex	glycoprotein binding|receptor activity			kidney(1)	1						CTGTCCTACCGGAAGGTGTCC	0.572													13	26	---	---	---	---	PASS
ITGAD	3681	broad.mit.edu	37	16	31425842	31425842	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:31425842C>T	uc002ebv.1	+	17	2116	c.2067C>T	c.(2065-2067)TTC>TTT	p.F689F	ITGAD_uc010cap.1_Silent_p.F690F	NM_005353	NP_005344	Q13349	ITAD_HUMAN	integrin, alpha D precursor	689	Extracellular (Potential).				cell-cell adhesion|cell-matrix adhesion|immune response|integrin-mediated signaling pathway	integrin complex	receptor activity			skin(1)	1						GTGCCATTTTCAATGAAACCA	0.493													65	185	---	---	---	---	PASS
ARMC5	79798	broad.mit.edu	37	16	31471195	31471195	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:31471195C>T	uc002ecc.2	+	1	879	c.350C>T	c.(349-351)TCT>TTT	p.S117F	ARMC5_uc010vfn.1_Missense_Mutation_p.S212F|ARMC5_uc010vfo.1_Missense_Mutation_p.S149F|ARMC5_uc002eca.3_Missense_Mutation_p.S117F|ARMC5_uc010vfp.1_Missense_Mutation_p.S117F|ARMC5_uc002ecb.2_Missense_Mutation_p.S117F	NM_001105247	NP_001098717	Q96C12	ARMC5_HUMAN	armadillo repeat containing 5 isoform a	117							binding			pancreas(1)	1						GTGTCGTCGTCTAGTCCTACG	0.597													3	3	---	---	---	---	PASS
GPT2	84706	broad.mit.edu	37	16	46943767	46943767	+	Missense_Mutation	SNP	C	T	T	rs116572438	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:46943767C>T	uc002eel.2	+	6	842	c.748C>T	c.(748-750)CGG>TGG	p.R250W	GPT2_uc002eem.2_Missense_Mutation_p.R150W	NM_133443	NP_597700	Q8TD30	ALAT2_HUMAN	glutamic pyruvate transaminase 2 isoform 1	250					2-oxoglutarate metabolic process|cellular amino acid biosynthetic process|L-alanine metabolic process	mitochondrial matrix	L-alanine:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding			ovary(1)|skin(1)	2		all_cancers(37;0.0276)|all_epithelial(9;0.0498)|all_lung(18;0.0522)			L-Alanine(DB00160)|L-Glutamic Acid(DB00142)|Pyridoxal Phosphate(DB00114)	TGAGCTCCGGCGGGCGGTGCA	0.552													7	32	---	---	---	---	PASS
ITFG1	81533	broad.mit.edu	37	16	47486699	47486699	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:47486699G>A	uc002eet.2	-	4	492	c.430C>T	c.(430-432)CCT>TCT	p.P144S	ITFG1_uc010vgh.1_Missense_Mutation_p.P31S|ITFG1_uc010cbf.1_Missense_Mutation_p.P31S	NM_030790	NP_110417	Q8TB96	TIP_HUMAN	integrin alpha FG-GAP repeat containing 1	144						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)				ATATTGTTAGGATCTGCAAAA	0.289													4	13	---	---	---	---	PASS
ABCC12	94160	broad.mit.edu	37	16	48180299	48180299	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:48180299C>T	uc002efc.1	-	1	383	c.37G>A	c.(37-39)GAC>AAC	p.D13N	ABCC12_uc002eey.1_RNA|ABCC12_uc002eez.1_RNA|ABCC12_uc002efa.1_RNA|ABCC12_uc002efb.1_RNA|ABCC12_uc002efd.1_RNA|ABCC12_uc002efe.1_Missense_Mutation_p.D13N|ABCC12_uc010vgj.1_RNA	NM_033226	NP_150229	Q96J65	MRP9_HUMAN	ATP-binding cassette protein C12	13						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)				CCTCGCTGGTCCAGATCTGAG	0.557													14	26	---	---	---	---	PASS
C16orf78	123970	broad.mit.edu	37	16	49412371	49412371	+	Intron	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:49412371T>A	uc002efr.2	+							NM_144602	NP_653203	Q8WTQ4	CP078_HUMAN	hypothetical protein LOC123970											central_nervous_system(1)	1						TCTCACCTGCTCCCTCCAAGG	0.562													3	3	---	---	---	---	PASS
C16orf78	123970	broad.mit.edu	37	16	49412373	49412373	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:49412373C>T	uc002efr.2	+							NM_144602	NP_653203	Q8WTQ4	CP078_HUMAN	hypothetical protein LOC123970											central_nervous_system(1)	1						TCACCTGCTCCCTCCAAGGCC	0.572													3	3	---	---	---	---	PASS
ZNF423	23090	broad.mit.edu	37	16	49670785	49670785	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:49670785G>A	uc002efs.2	-	5	2576	c.2278C>T	c.(2278-2280)CGC>TGC	p.R760C	ZNF423_uc010vgn.1_Missense_Mutation_p.R643C	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	760	C2H2-type 18.				cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				GCCTCCTTGCGGAAGTCCCAG	0.597													6	21	---	---	---	---	PASS
ZNF423	23090	broad.mit.edu	37	16	49670786	49670786	+	Silent	SNP	G	A	A	rs138951619		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:49670786G>A	uc002efs.2	-	5	2575	c.2277C>T	c.(2275-2277)TTC>TTT	p.F759F	ZNF423_uc010vgn.1_Silent_p.F642F	NM_015069	NP_055884	Q2M1K9	ZN423_HUMAN	zinc finger protein 423	759	C2H2-type 18.				cell differentiation|negative regulation of transcription, DNA-dependent|nervous system development|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	zinc ion binding			ovary(1)|lung(1)|kidney(1)|pancreas(1)	4		all_cancers(37;0.0155)				CCTCCTTGCGGAAGTCCCAGT	0.597													6	22	---	---	---	---	PASS
PAPD5	64282	broad.mit.edu	37	16	50258577	50258577	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:50258577T>C	uc010vgo.1	+	9	1381	c.1346T>C	c.(1345-1347)GTT>GCT	p.V449A	PAPD5_uc010cbi.2_RNA|PAPD5_uc002efz.2_Missense_Mutation_p.V240A|PAPD5_uc002ega.2_Missense_Mutation_p.V240A	NM_001040284	NP_001035374	Q8NDF8	PAPD5_HUMAN	PAP associated domain containing 5 isoform a	370					cell division|DNA replication|histone mRNA catabolic process|mitosis	cytoplasm|nucleus	DNA binding|DNA-directed DNA polymerase activity|metal ion binding				0		all_cancers(37;0.0452)		BRCA - Breast invasive adenocarcinoma(181;0.0843)|GBM - Glioblastoma multiforme(240;0.231)		GGTAACGATGTTGGAAGGAGT	0.418													31	37	---	---	---	---	PASS
BRD7	29117	broad.mit.edu	37	16	50388743	50388743	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:50388743G>A	uc002egf.1	-	4	416	c.349C>T	c.(349-351)CCT>TCT	p.P117S	BRD7_uc002ege.1_Missense_Mutation_p.P117S	NM_013263	NP_037395	Q9NPI1	BRD7_HUMAN	bromodomain containing 7	117					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)				GGCTTCTCAGGAGGCAAGTCT	0.448													22	68	---	---	---	---	PASS
SNX20	124460	broad.mit.edu	37	16	50707814	50707814	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:50707814C>T	uc002egk.2	-	4	627	c.454G>A	c.(454-456)GAG>AAG	p.E152K	SNX20_uc010vgp.1_Intron|SNX20_uc002egi.3_Intron	NM_182854	NP_878274	Q7Z614	SNX20_HUMAN	sorting nexin 20 isoform 1	152	PX.				cell communication|protein transport	endosome membrane|nucleus|plasma membrane	phosphatidylinositol binding|protein binding			ovary(1)	1						CAGATCATCTCCTCAGCGAAG	0.622													12	26	---	---	---	---	PASS
NOD2	64127	broad.mit.edu	37	16	50744674	50744674	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:50744674C>T	uc002egm.1	+	4	957	c.852C>T	c.(850-852)ACC>ACT	p.T284T	NOD2_uc010cbk.1_Silent_p.T257T|NOD2_uc002egl.1_Silent_p.T62T|NOD2_uc010cbl.1_Silent_p.T62T|NOD2_uc010cbm.1_Silent_p.T62T|NOD2_uc010cbn.1_RNA|NOD2_uc010cbo.1_RNA|NOD2_uc010cbp.1_5'Flank|NOD2_uc010cbq.1_5'Flank|NOD2_uc010cbr.1_5'Flank	NM_022162	NP_071445	Q9HC29	NOD2_HUMAN	nucleotide-binding oligomerization domain	284					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)				TCTTCAGCACCCCTGGCCACC	0.642													5	8	---	---	---	---	PASS
CYLD	1540	broad.mit.edu	37	16	50810116	50810116	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:50810116C>T	uc002egp.1	+	7	1364	c.949C>T	c.(949-951)CCC>TCC	p.P317S	CYLD_uc002egn.1_Missense_Mutation_p.P314S|CYLD_uc002ego.2_Missense_Mutation_p.P314S|CYLD_uc010cbs.1_Missense_Mutation_p.P314S|CYLD_uc002egq.1_Missense_Mutation_p.P314S|CYLD_uc002egr.1_Missense_Mutation_p.P314S|CYLD_uc002egs.1_Missense_Mutation_p.P314S	NM_015247	NP_056062	Q9NQC7	CYLD_HUMAN	ubiquitin carboxyl-terminal hydrolase CYLD	317	Interaction with TRIP.				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)				AAGGAGGCCTCCCAAACTTGC	0.383			Mis|N|F|S		cylindroma	cylindroma			Familial_Cylindromatosis|Multiple_Trichoepithelioma_Familial				13	26	---	---	---	---	PASS
SALL1	6299	broad.mit.edu	37	16	51172738	51172738	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:51172738T>C	uc010vgs.1	-	2	3426	c.3395A>G	c.(3394-3396)AAG>AGG	p.K1132R	SALL1_uc010vgr.1_Missense_Mutation_p.K1035R|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	1132					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			GTAGTGCTGCTTGGGAGTTCT	0.562													6	18	---	---	---	---	PASS
SALL1	6299	broad.mit.edu	37	16	51173282	51173282	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:51173282C>T	uc010vgs.1	-	2	2882	c.2851G>A	c.(2851-2853)GCG>ACG	p.A951T	SALL1_uc010vgr.1_Missense_Mutation_p.A854T|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	951					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			CTTGGGACCGCTCTCTGTGGT	0.522													15	31	---	---	---	---	PASS
SALL1	6299	broad.mit.edu	37	16	51173945	51173945	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:51173945C>T	uc010vgs.1	-	2	2219	c.2188G>A	c.(2188-2190)GGG>AGG	p.G730R	SALL1_uc010vgr.1_Missense_Mutation_p.G633R|SALL1_uc010cbv.2_Intron	NM_002968	NP_002959	Q9NSC2	SALL1_HUMAN	sal-like 1 isoform a	730					adrenal gland development|branching involved in ureteric bud morphogenesis|embryonic digestive tract development|embryonic digit morphogenesis|gonad development|histone deacetylation|inductive cell-cell signaling|mesenchymal to epithelial transition involved in metanephros morphogenesis|negative regulation of transcription from RNA polymerase II promoter|olfactory bulb interneuron differentiation|olfactory bulb mitral cell layer development|olfactory nerve development|outer ear morphogenesis|pituitary gland development|positive regulation of transcription from RNA polymerase II promoter|positive regulation of Wnt receptor signaling pathway|ureteric bud invasion|ventricular septum development	chromocenter|cytoplasm|heterochromatin|nucleus	beta-catenin binding|DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			skin(5)|ovary(3)	8		all_cancers(37;0.0322)	COAD - Colon adenocarcinoma(2;0.24)			GGCCTCTCCCCAGTGTGTGTC	0.532													9	54	---	---	---	---	PASS
TOX3	27324	broad.mit.edu	37	16	52473848	52473848	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:52473848G>A	uc002egw.2	-	7	1191	c.1020C>T	c.(1018-1020)ATC>ATT	p.I340I	TOX3_uc010vgt.1_Silent_p.I335I|TOX3_uc010vgu.1_Silent_p.I340I	NM_001080430	NP_001073899	O15405	TOX3_HUMAN	TOX high mobility group box family member 3	340					apoptosis|negative regulation of neuron apoptosis|positive regulation of anti-apoptosis|positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	chromatin binding|estrogen response element binding|phosphoprotein binding|protein homodimerization activity				0						GAACAGAACGGATGGTCTGGG	0.453													14	39	---	---	---	---	PASS
CHD9	80205	broad.mit.edu	37	16	53338389	53338389	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:53338389C>T	uc002ehb.2	+	30	6635	c.6471C>T	c.(6469-6471)TCC>TCT	p.S2157S	CHD9_uc002egy.2_Silent_p.S2157S|CHD9_uc002ehc.2_Silent_p.S2157S|CHD9_uc002ehf.2_Silent_p.S1271S|CHD9_uc010cbw.2_Intron|CHD9_uc002ehg.1_Silent_p.S163S	NM_025134	NP_079410	Q3L8U1	CHD9_HUMAN	chromodomain helicase DNA binding protein 9	2157	Ser-rich.				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)				CTTCTTGCTCCCACTCTCGAT	0.264													4	8	---	---	---	---	PASS
IRX6	79190	broad.mit.edu	37	16	55362636	55362636	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:55362636G>A	uc002ehy.2	+	5	1279	c.746G>A	c.(745-747)CGG>CAG	p.R249Q	IRX6_uc002ehx.2_Missense_Mutation_p.R249Q	NM_024335	NP_077311	P78412	IRX6_HUMAN	iroquois homeobox protein 6	249						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			central_nervous_system(5)|ovary(1)	6						CAGGAGGCCCGGGGGCTCCGG	0.473													12	44	---	---	---	---	PASS
CES7	221223	broad.mit.edu	37	16	55886869	55886869	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:55886869G>A	uc002eip.2	-	10	1346	c.1197C>T	c.(1195-1197)ATC>ATT	p.I399I	CES7_uc002eio.2_Silent_p.I399I|CES7_uc002eiq.2_Silent_p.I160I|CES7_uc002eir.2_Silent_p.I293I	NM_001143685	NP_001137157	Q6NT32	EST5A_HUMAN	carboxylesterase 7 isoform 1	399						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)		GACTGTCTCGGATTTCAGTCA	0.483													17	56	---	---	---	---	PASS
AMFR	267	broad.mit.edu	37	16	56396624	56396624	+	3'UTR	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:56396624G>A	uc002eiy.2	-	14					AMFR_uc002eiw.2_RNA|AMFR_uc002eix.2_3'UTR	NM_001144	NP_001135	Q9UKV5	AMFR2_HUMAN	autocrine motility factor receptor						endoplasmic reticulum unfolded protein response|ER-associated protein catabolic process|protein oligomerization|protein polyubiquitination	integral to endoplasmic reticulum membrane|integral to membrane of membrane fraction	protein binding|protein binding|receptor activity|ubiquitin-protein ligase activity|zinc ion binding			breast(2)	2						TTTCTAAGGGGAAGAGAAATG	0.428													15	34	---	---	---	---	PASS
SLC12A3	6559	broad.mit.edu	37	16	56912056	56912056	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:56912056C>T	uc010ccm.2	+	9	1192	c.1163C>T	c.(1162-1164)GCC>GTC	p.A388V	SLC12A3_uc002ekd.3_Missense_Mutation_p.A388V|SLC12A3_uc010ccn.2_Missense_Mutation_p.A387V	NM_001126108	NP_001119580	P55017	S12A3_HUMAN	solute carrier family 12, member 3 isoform 3	388	Helical; (Potential).				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)	TCCTACCTGGCCATCTCAGCC	0.522													9	13	---	---	---	---	PASS
SLC12A3	6559	broad.mit.edu	37	16	56916389	56916389	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:56916389C>T	uc010ccm.2	+	13	1678	c.1649C>T	c.(1648-1650)GCC>GTC	p.A550V	SLC12A3_uc002ekd.3_Missense_Mutation_p.A550V|SLC12A3_uc010ccn.2_Missense_Mutation_p.A549V	NM_001126108	NP_001119580	P55017	S12A3_HUMAN	solute carrier family 12, member 3 isoform 3	550	Helical; (Potential).				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)	TGCTTCCACGCCTCCATCACC	0.597													14	31	---	---	---	---	PASS
SLC12A3	6559	broad.mit.edu	37	16	56920854	56920854	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:56920854C>T	uc010ccm.2	+						SLC12A3_uc002ekd.3_Intron|SLC12A3_uc010ccn.2_Intron	NM_001126108	NP_001119580	P55017	S12A3_HUMAN	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)	CCCTGCCCCTCCCACCCACAG	0.632													10	10	---	---	---	---	PASS
FAM192A	80011	broad.mit.edu	37	16	57207713	57207713	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:57207713C>T	uc010vhk.1	-	2	313	c.54G>A	c.(52-54)GAG>GAA	p.E18E	FAM192A_uc002ekz.3_Silent_p.E18E|FAM192A_uc002ekv.3_Intron|FAM192A_uc002ekw.3_Silent_p.E18E|FAM192A_uc002ekx.3_Silent_p.E18E|FAM192A_uc002eky.3_Silent_p.E18E|FAM192A_uc010ccx.2_Silent_p.E18E	NM_024946	NP_079222	Q9GZU8	F192A_HUMAN	NEFA-interacting nuclear protein NIP30	18						nucleus					0						CTAGTTCTGCCTCAGACACAA	0.363													18	52	---	---	---	---	PASS
CCDC135	84229	broad.mit.edu	37	16	57732912	57732912	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:57732912C>T	uc002emi.2	+	3	443	c.354C>T	c.(352-354)CAC>CAT	p.H118H	CCDC135_uc002emj.2_Silent_p.H118H|CCDC135_uc002emk.2_Silent_p.H118H	NM_032269	NP_115645	Q8IY82	CC135_HUMAN	coiled-coil domain containing 135	118						cytoplasm				central_nervous_system(1)	1						TCTTCCTGCACCCCCTGAACG	0.637													36	94	---	---	---	---	PASS
CNOT1	23019	broad.mit.edu	37	16	58580634	58580634	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:58580634G>A	uc002env.2	-	28	4063	c.3770C>T	c.(3769-3771)CCT>CTT	p.P1257L	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Missense_Mutation_p.P1252L|CNOT1_uc002enx.2_Missense_Mutation_p.P1257L|CNOT1_uc010vik.1_Missense_Mutation_p.P214L	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	1257					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)		CATTGTCCAAGGGTTTGGTGG	0.358													8	49	---	---	---	---	PASS
CNOT1	23019	broad.mit.edu	37	16	58621257	58621257	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:58621257C>T	uc002env.2	-	5	663	c.370G>A	c.(370-372)GTA>ATA	p.V124I	CNOT1_uc002enw.2_RNA|CNOT1_uc002enu.3_Missense_Mutation_p.V124I|CNOT1_uc002enx.2_Missense_Mutation_p.V124I|CNOT1_uc002enz.1_Intron	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	CCR4-NOT transcription complex, subunit 1	124					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)		ACCTCTTGTACTTTGCTTAAT	0.333													31	37	---	---	---	---	PASS
CDH8	1006	broad.mit.edu	37	16	61687506	61687506	+	3'UTR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:61687506C>T	uc002eog.1	-	12						NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein						adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		TATTTATAATCCACTGTCAAG	0.423													16	30	---	---	---	---	PASS
CDH8	1006	broad.mit.edu	37	16	61687532	61687532	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:61687532C>T	uc002eog.1	-	12	2632	c.2380G>A	c.(2380-2382)GAA>AAA	p.E794K		NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	794	Cytoplasmic (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		TTGTCACTTTCACCAACAGAG	0.448													12	33	---	---	---	---	PASS
CDH8	1006	broad.mit.edu	37	16	61851579	61851579	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:61851579G>A	uc002eog.1	-	7	1333	c.1081C>T	c.(1081-1083)CAT>TAT	p.H361Y	CDH8_uc002eoh.2_Missense_Mutation_p.H130Y	NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein	361	Extracellular (Potential).|Cadherin 3.				adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		GGGTCAATATGGACATTGGCT	0.468													6	22	---	---	---	---	PASS
CDH8	1006	broad.mit.edu	37	16	61859092	61859092	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:61859092G>A	uc002eog.1	-						CDH8_uc002eoh.2_Intron	NM_001796	NP_001787	P55286	CADH8_HUMAN	cadherin 8, type 2 preproprotein						adherens junction organization|cell junction assembly|homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(6)|skin(2)|breast(1)	9		Ovarian(137;0.0799)|Melanoma(118;0.16)		UCEC - Uterine corpus endometrioid carcinoma (183;0.196)|Epithelial(162;0.0155)|all cancers(182;0.0305)|OV - Ovarian serous cystadenocarcinoma(108;0.0499)|BRCA - Breast invasive adenocarcinoma(181;0.249)		AGCTGAGGGGGAAAATGGAAG	0.428													11	18	---	---	---	---	PASS
CDH11	1009	broad.mit.edu	37	16	65016127	65016127	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:65016127G>A	uc002eoi.2	-	8	1511	c.1077C>T	c.(1075-1077)ATC>ATT	p.I359I	CDH11_uc010cdn.2_Intron|CDH11_uc002eoj.2_Silent_p.I359I|CDH11_uc010vin.1_Silent_p.I233I|CDH11_uc002eok.1_RNA	NM_001797	NP_001788	P55287	CAD11_HUMAN	cadherin 11, type 2 preproprotein	359	Cadherin 3.|Extracellular (Potential).				adherens junction organization|cell junction assembly|homophilic cell adhesion|ossification|skeletal system development	integral to membrane|plasma membrane	calcium ion binding|protein binding			lung(10)|ovary(3)|skin(1)	14		Ovarian(137;0.0973)		OV - Ovarian serous cystadenocarcinoma(108;0.205)		GGCCATTGCTGATAAACTTCG	0.478			T	USP6	aneurysmal bone cysts					TSP Lung(24;0.17)			13	46	---	---	---	---	PASS
DYNC1LI2	1783	broad.mit.edu	37	16	66759779	66759779	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:66759779G>A	uc002eqb.1	-	12	1361	c.1330C>T	c.(1330-1332)CCT>TCT	p.P444S	DYNC1LI2_uc010vis.1_Missense_Mutation_p.P367S	NM_006141	NP_006132	O43237	DC1L2_HUMAN	dynein, cytoplasmic, light intermediate	444					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)		GGACTTCCAGGAGAGCCTGTC	0.478													54	93	---	---	---	---	PASS
CA7	766	broad.mit.edu	37	16	66881131	66881131	+	Splice_Site	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:66881131G>A	uc002eqi.2	+	2	347	c.238_splice	c.e2+1	p.V80_splice	uc002eqh.2_Intron|CA7_uc002eqj.2_Splice_Site_p.V24_splice	NM_005182	NP_005173	P43166	CAH7_HUMAN	carbonic anhydrase VII isoform 1						one-carbon metabolic process	cytoplasm	carbonate dehydratase activity|zinc ion binding				0		Ovarian(137;0.0563)		OV - Ovarian serous cystadenocarcinoma(108;0.088)|Epithelial(162;0.204)		GACCGAACCGGTAAGTGGCCC	0.562													7	14	---	---	---	---	PASS
C16orf70	80262	broad.mit.edu	37	16	67180995	67180995	+	Silent	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:67180995C>A	uc002erc.2	+	17	1314	c.1230C>A	c.(1228-1230)CCC>CCA	p.P410P	C16orf70_uc002erd.2_Silent_p.P410P|uc002erg.1_5'Flank	NM_025187	NP_079463	Q9BSU1	CP070_HUMAN	lin-10	410										ovary(2)	2		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0017)|Epithelial(162;0.00655)|all cancers(182;0.0579)		ATGGCCCCCCCAGGCCTGGTA	0.602													5	66	---	---	---	---	PASS
ELMO3	79767	broad.mit.edu	37	16	67235875	67235875	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:67235875C>T	uc002esa.2	+						ELMO3_uc002esb.2_Intron|ELMO3_uc002esc.2_Intron	NM_024712	NP_078988	Q96BJ8	ELMO3_HUMAN	engulfment and cell motility 3						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)		GCCCACTTCCCCCAGAACAGC	0.642													5	20	---	---	---	---	PASS
ELMO3	79767	broad.mit.edu	37	16	67235876	67235876	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:67235876C>T	uc002esa.2	+						ELMO3_uc002esb.2_Intron|ELMO3_uc002esc.2_Intron	NM_024712	NP_078988	Q96BJ8	ELMO3_HUMAN	engulfment and cell motility 3						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)		CCCACTTCCCCCAGAACAGCA	0.637													5	21	---	---	---	---	PASS
KCTD19	146212	broad.mit.edu	37	16	67327714	67327714	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:67327714C>T	uc002esu.2	-	12	2002	c.1951G>A	c.(1951-1953)GAA>AAA	p.E651K	KCTD19_uc002est.2_Missense_Mutation_p.E423K|KCTD19_uc010vjj.1_Missense_Mutation_p.E394K	NM_001100915	NP_001094385	Q17RG1	KCD19_HUMAN	potassium channel tetramerisation domain	651						voltage-gated potassium channel complex	voltage-gated potassium channel activity			skin(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0311)|Epithelial(162;0.0906)		GGCTGGAATTCCCACTGTTTG	0.582													21	33	---	---	---	---	PASS
CTCF	10664	broad.mit.edu	37	16	67662408	67662408	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:67662408C>T	uc002etl.2	+	9	1944	c.1654C>T	c.(1654-1656)CCT>TCT	p.P552S	CTCF_uc010cek.2_Missense_Mutation_p.P224S|CTCF_uc002etm.1_Missense_Mutation_p.P41S	NM_006565	NP_006556	P49711	CTCF_HUMAN	CCCTC-binding factor	552					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)		CAACTTCGTCCCTGCGGCTTT	0.498													39	69	---	---	---	---	PASS
RANBP10	57610	broad.mit.edu	37	16	67768871	67768871	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:67768871G>A	uc002eud.2	-	6	782	c.666C>T	c.(664-666)TTC>TTT	p.F222F	RANBP10_uc010ceo.2_5'UTR|RANBP10_uc010vju.1_Silent_p.F166F|RANBP10_uc010vjv.1_Silent_p.F105F|RANBP10_uc010vjx.1_Silent_p.F222F|RANBP10_uc010vjy.1_Silent_p.F90F	NM_020850	NP_065901	Q6VN20	RBP10_HUMAN	RAN binding protein 10	222	B30.2/SPRY.									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)		TGTCAAACAGGAAGGGCTGCT	0.607													8	15	---	---	---	---	PASS
PSKH1	5681	broad.mit.edu	37	16	67943456	67943456	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:67943456C>T	uc002euv.2	+	2	974	c.804C>T	c.(802-804)GTC>GTT	p.V268V	PSKH1_uc010cet.2_Silent_p.V268V	NM_006742	NP_006733	P11801	KPSH1_HUMAN	protein serine kinase H1	268	Protein kinase.					endoplasmic reticulum membrane|Golgi apparatus|microtubule organizing center|nuclear speck|plasma membrane	ATP binding|protein serine/threonine kinase activity				0		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.0044)|Epithelial(162;0.0197)|all cancers(182;0.128)		CCCCAGAAGTCCTGGTCCGCA	0.567													9	27	---	---	---	---	PASS
NFATC3	4775	broad.mit.edu	37	16	68156241	68156241	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:68156241C>T	uc002evo.1	+	2	665	c.455C>T	c.(454-456)CCT>CTT	p.P152L	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_Missense_Mutation_p.P152L|NFATC3_uc002evm.1_Missense_Mutation_p.P152L|NFATC3_uc002evn.1_Missense_Mutation_p.P152L|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,	152					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)		CTCTATCTTCCTCTTGAGCCA	0.443													19	51	---	---	---	---	PASS
SLC7A6	9057	broad.mit.edu	37	16	68308694	68308694	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:68308694C>T	uc002evt.1	+	4	374	c.65C>T	c.(64-66)TCC>TTC	p.S22F	SLC7A6_uc010cfb.1_RNA|SLC7A6_uc002evu.1_Missense_Mutation_p.S22F|SLC7A6_uc002evv.1_RNA|SLC7A6_uc010cfc.1_RNA	NM_001076785	NP_001070253	Q92536	YLAT2_HUMAN	solute carrier family 7 (cationic amino acid	22	Cytoplasmic (Potential).				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)		ACCAGCCAGTCCCAGGTGGAA	0.577													10	23	---	---	---	---	PASS
SLC7A6OS	84138	broad.mit.edu	37	16	68338066	68338066	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:68338066C>T	uc002evw.1	-	3	560	c.541G>A	c.(541-543)GAT>AAT	p.D181N		NM_032178	NP_115554	Q96CW6	S7A6O_HUMAN	solute carrier family 7, member 6 opposite	181					protein transport	cytoplasm|nucleus				ovary(1)	1		Ovarian(137;0.192)		OV - Ovarian serous cystadenocarcinoma(108;0.034)|Epithelial(162;0.106)		CCTGGTCCATCCTCAGACACA	0.473													43	74	---	---	---	---	PASS
CIRH1A	84916	broad.mit.edu	37	16	69202755	69202755	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:69202755G>A	uc002ews.3	+	17	2072	c.1976G>A	c.(1975-1977)AGA>AAA	p.R659K	CIRH1A_uc002ewt.3_Missense_Mutation_p.R576K|CIRH1A_uc010cfi.2_Missense_Mutation_p.R461K	NM_032830	NP_116219	Q969X6	CIR1A_HUMAN	cirhin	659						nucleolus	protein binding				0				OV - Ovarian serous cystadenocarcinoma(108;0.125)		TTGGATGAAAGAACACTCGTG	0.448													21	39	---	---	---	---	PASS
PDPR	55066	broad.mit.edu	37	16	70172834	70172834	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:70172834C>T	uc002eyf.1	+	11	2180	c.1223C>T	c.(1222-1224)CCC>CTC	p.P408L	CLEC18C_uc002exy.2_Intron|PDPR_uc010vlr.1_Missense_Mutation_p.P308L|PDPR_uc002eyg.1_Missense_Mutation_p.P136L	NM_017990	NP_060460	Q8NCN5	PDPR_HUMAN	pyruvate dehydrogenase phosphatase regulatory	408					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)		CATGGTTATCCCTCAGAAAAC	0.483													8	50	---	---	---	---	PASS
DDX19A	55308	broad.mit.edu	37	16	70400755	70400755	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:70400755C>T	uc002eyv.2	+	9	1082	c.1011C>T	c.(1009-1011)ATC>ATT	p.I337I	DDX19B_uc010vly.1_Intron|DDX19A_uc002eys.2_Silent_p.I338I|DDX19A_uc010cfq.1_Silent_p.I92I|DDX19A_uc010cfr.2_Silent_p.I187I|DDX19A_uc010cfs.2_Silent_p.I160I|DDX19A_uc010vlz.1_Silent_p.I306I|DDX19A_uc010vma.1_Silent_p.I247I	NM_018332	NP_060802	Q9NUU7	DD19A_HUMAN	DDX19-like protein	337	Helicase C-terminal.				mRNA transport|protein transport|transmembrane transport	cytoplasm|nuclear membrane|nuclear pore	ATP binding|ATP-dependent helicase activity|RNA binding				0		Ovarian(137;0.221)				AAGCCATGATCTTCTGCCATG	0.592													12	49	---	---	---	---	PASS
COG4	25839	broad.mit.edu	37	16	70531126	70531126	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:70531126G>A	uc002ezc.2	-	11	1490	c.1479C>T	c.(1477-1479)TTC>TTT	p.F493F	COG4_uc002ezb.2_5'UTR|COG4_uc010cfu.2_RNA|COG4_uc002ezd.2_Silent_p.F493F|COG4_uc002eze.2_Silent_p.F187F	NM_015386	NP_056201	Q9H9E3	COG4_HUMAN	component of oligomeric golgi complex 4	489					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)				AACTGTACCTGAAGTCAGACT	0.502													14	48	---	---	---	---	PASS
HYDIN	54768	broad.mit.edu	37	16	70891610	70891610	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:70891610A>T	uc002ezr.2	-	72	12418	c.12290T>A	c.(12289-12291)ATT>AAT	p.I4097N	HYDIN_uc010cfy.2_RNA	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	4098										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				AGCCTTACCAATGAGGAGAGA	0.498													5	26	---	---	---	---	PASS
HYDIN	54768	broad.mit.edu	37	16	70891611	70891611	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:70891611T>C	uc002ezr.2	-	72	12417	c.12289A>G	c.(12289-12291)ATT>GTT	p.I4097V	HYDIN_uc010cfy.2_RNA	NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	4098										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				GCCTTACCAATGAGGAGAGAG	0.498													5	27	---	---	---	---	PASS
HYDIN	54768	broad.mit.edu	37	16	70917872	70917872	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:70917872G>A	uc002ezr.2	-	59	10055	c.9927C>T	c.(9925-9927)GTC>GTT	p.V3309V		NM_032821	NP_116210	Q4G0P3	HYDIN_HUMAN	hydrocephalus inducing isoform a	3310										ovary(1)|skin(1)	2		Ovarian(137;0.0654)				CGGCAGGGTGGACTGCAGGGT	0.522													11	17	---	---	---	---	PASS
FTSJD1	55783	broad.mit.edu	37	16	71318220	71318220	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:71318220G>A	uc010cga.2	-	3	2010	c.1604C>T	c.(1603-1605)TCC>TTC	p.S535F	FTSJD1_uc002ezy.3_Missense_Mutation_p.S535F|FTSJD1_uc002ezz.3_Missense_Mutation_p.S535F	NM_001099642	NP_001093112	Q8IYT2	FTSJ1_HUMAN	FtsJ methyltransferase domain containing 1	535						integral to membrane	methyltransferase activity|nucleic acid binding			skin(1)	1						CCTAAACTTGGAATCCAAATT	0.353													18	23	---	---	---	---	PASS
ZNF23	7571	broad.mit.edu	37	16	71483440	71483440	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:71483440G>A	uc002faf.2	-	6	1302	c.488C>T	c.(487-489)TCT>TTT	p.S163F	ZNF23_uc002fad.2_Missense_Mutation_p.S105F|ZNF23_uc002fae.2_Missense_Mutation_p.S105F|ZNF23_uc010vmf.1_Missense_Mutation_p.S105F|ZNF23_uc002fag.2_Missense_Mutation_p.S105F|ZNF23_uc002fah.2_Missense_Mutation_p.S163F|ZNF23_uc002fai.2_Missense_Mutation_p.S202F	NM_145911	NP_666016	P17027	ZNF23_HUMAN	zinc finger protein 23	163					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Ovarian(137;0.00768)		BRCA - Breast invasive adenocarcinoma(221;0.0686)		TCTTTCCTCAGAATTAATTAT	0.408													10	48	---	---	---	---	PASS
CHST4	10164	broad.mit.edu	37	16	71570631	71570631	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:71570631G>A	uc002fan.2	+	2	232	c.51G>A	c.(49-51)ATG>ATA	p.M17I	CHST4_uc002fao.2_Missense_Mutation_p.M17I	NM_005769	NP_005760	Q8NCG5	CHST4_HUMAN	carbohydrate (N-acetylglucosamine 6-O)	17	Helical; Signal-anchor for type II membrane protein; (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						TTTCCCAGATGGCCATCTTGG	0.493													15	27	---	---	---	---	PASS
TAT	6898	broad.mit.edu	37	16	71602689	71602689	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:71602689G>A	uc002fap.2	-	11	1248	c.1149C>T	c.(1147-1149)TTC>TTT	p.F383F		NM_000353	NP_000344	P17735	ATTY_HUMAN	tyrosine aminotransferase	383					2-oxoglutarate metabolic process|glutamate metabolic process|L-phenylalanine catabolic process|tyrosine catabolic process	cytosol	1-aminocyclopropane-1-carboxylate synthase activity|L-tyrosine:2-oxoglutarate aminotransferase activity|pyridoxal phosphate binding			ovary(2)	2		Ovarian(137;0.125)		Kidney(780;0.0157)	L-Glutamic Acid(DB00142)|L-Phenylalanine(DB00120)|L-Tyrosine(DB00135)|Pyridoxal Phosphate(DB00114)	CAAATTCTGGGAAATGTTCCA	0.512													5	16	---	---	---	---	PASS
MARVELD3	91862	broad.mit.edu	37	16	71668666	71668666	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:71668666G>A	uc002fat.2	+	3	1229	c.1166G>A	c.(1165-1167)AGG>AAG	p.R389K	MARVELD3_uc002fau.2_Intron|MARVELD3_uc010cge.2_Intron	NM_052858	NP_443090	Q96A59	MALD3_HUMAN	MARVEL domain containing 3 isoform 2	389	Cytoplasmic (Potential).					integral to membrane				skin(1)	1		Ovarian(137;0.125)				CGAAAAGTTAGGAAGCTAAAA	0.498													11	43	---	---	---	---	PASS
AP1G1	164	broad.mit.edu	37	16	71768618	71768618	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:71768618G>A	uc010cgg.2	-						AP1G1_uc002fba.2_Intron|AP1G1_uc002fbb.2_Intron|AP1G1_uc002faz.2_Intron	NM_001128	NP_001119	O43747	AP1G1_HUMAN	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)				TGTCTAGGGGGGAACAAAGGG	0.458													60	63	---	---	---	---	PASS
PMFBP1	83449	broad.mit.edu	37	16	72188302	72188302	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:72188302G>A	uc002fcc.3	-	4	394	c.222C>T	c.(220-222)TCC>TCT	p.S74S	PMFBP1_uc002fcd.2_Silent_p.S74S|PMFBP1_uc002fce.2_RNA|PMFBP1_uc002fcf.2_5'UTR	NM_031293	NP_112583	Q8TBY8	PMFBP_HUMAN	polyamine modulated factor 1 binding protein 1	74										ovary(2)	2		Ovarian(137;0.179)				ACTGTTTACTGGACCCAAATT	0.433													19	33	---	---	---	---	PASS
ZFHX3	463	broad.mit.edu	37	16	72822391	72822391	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:72822391C>T	uc002fck.2	-	10	10457	c.9784G>A	c.(9784-9786)GGA>AGA	p.G3262R	ZFHX3_uc002fcl.2_Missense_Mutation_p.G2348R	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	3262					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)				GGGGCCTCTCCTTTCTCCTTC	0.597													25	32	---	---	---	---	PASS
ZFHX3	463	broad.mit.edu	37	16	72829629	72829629	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:72829629C>T	uc002fck.2	-	9	7625	c.6952G>A	c.(6952-6954)GAT>AAT	p.D2318N	ZFHX3_uc002fcl.2_Missense_Mutation_p.D1404N	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	2318					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)				ATGTATCTATCATTTGTAAGC	0.458													37	64	---	---	---	---	PASS
ZFHX3	463	broad.mit.edu	37	16	72991362	72991362	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:72991362G>A	uc002fck.2	-	2	3356	c.2683C>T	c.(2683-2685)CCC>TCC	p.P895S	ZFHX3_uc002fcl.2_Intron	NM_006885	NP_008816	Q15911	ZFHX3_HUMAN	zinc finger homeobox 3 isoform A	895					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)				GGCCCGGCGGGATCCAGCTGG	0.542													15	20	---	---	---	---	PASS
CNTNAP4	85445	broad.mit.edu	37	16	76389314	76389314	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:76389314G>A	uc002feu.1	+	5	681	c.296G>A	c.(295-297)GGA>GAA	p.G99E	CNTNAP4_uc002fev.1_Missense_Mutation_p.G11E|CNTNAP4_uc010chb.1_Missense_Mutation_p.G74E|CNTNAP4_uc002fex.1_Missense_Mutation_p.G102E|CNTNAP4_uc002few.2_Missense_Mutation_p.G74E	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	99	Extracellular (Potential).|F5/8 type C.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						ACTCAAGGGGGATATGGTAGC	0.522													9	33	---	---	---	---	PASS
CNTNAP4	85445	broad.mit.edu	37	16	76481942	76481942	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:76481942C>T	uc002feu.1	+	7	957	c.572C>T	c.(571-573)TCC>TTC	p.S191F	CNTNAP4_uc002fev.1_Missense_Mutation_p.S103F|CNTNAP4_uc010chb.1_Missense_Mutation_p.S166F|CNTNAP4_uc002fex.1_Missense_Mutation_p.S194F|CNTNAP4_uc002few.2_Missense_Mutation_p.S166F	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	191	Extracellular (Potential).				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						GGAAAAAGTTCCCTTCTCTAC	0.343													17	53	---	---	---	---	PASS
CNTNAP4	85445	broad.mit.edu	37	16	76523671	76523671	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:76523671C>T	uc002feu.1	+	15	2356	c.1971C>T	c.(1969-1971)TTC>TTT	p.F657F	CNTNAP4_uc002fev.1_Silent_p.F521F|CNTNAP4_uc010chb.1_Silent_p.F584F|CNTNAP4_uc002fex.1_Silent_p.F660F|CNTNAP4_uc002few.2_Silent_p.F632F	NM_033401	NP_207837	Q9C0A0	CNTP4_HUMAN	cell recognition protein CASPR4 isoform 1	657	Extracellular (Potential).|Fibrinogen C-terminal.				cell adhesion|signal transduction	integral to membrane	receptor binding			ovary(1)|pancreas(1)	2						CTGGGTTTTTCGAGTATGTGG	0.458													9	14	---	---	---	---	PASS
C16orf46	123775	broad.mit.edu	37	16	81095315	81095315	+	Silent	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:81095315G>T	uc002fgc.3	-	4	898	c.639C>A	c.(637-639)CCC>CCA	p.P213P	C16orf46_uc010chf.2_Silent_p.P213P|C16orf46_uc010vno.1_5'UTR	NM_152337	NP_689550	Q6P387	CP046_HUMAN	chromosome 16 open reading frame 46 isoform 2	213											0						AAGCCTTCAGGGGAGGCAGAA	0.542													5	70	---	---	---	---	PASS
GCSH	2653	broad.mit.edu	37	16	81124258	81124258	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:81124258C>A	uc002fgd.2	-	2	273	c.176G>T	c.(175-177)TGG>TTG	p.W59L	GCSH_uc002fge.2_RNA	NM_004483	NP_004474	P23434	GCSH_HUMAN	glycine cleavage system protein H (aminomethyl	59						glycine cleavage complex|mitochondrion	aminomethyltransferase activity				0					Glycine(DB00145)	TGTTGTTACCCATTCGTGTTT	0.368													4	27	---	---	---	---	PASS
PKD1L2	114780	broad.mit.edu	37	16	81241185	81241185	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:81241185G>A	uc002fgh.1	-	5	816	c.816C>T	c.(814-816)TCC>TCT	p.S272S	PKD1L2_uc002fgj.2_Silent_p.S272S	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	272	Extracellular (Potential).				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						GCCACGTCAGGGAGATGGTGA	0.468													27	97	---	---	---	---	PASS
PKD1L2	114780	broad.mit.edu	37	16	81249906	81249906	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:81249906G>A	uc002fgh.1	-	2	407	c.407C>T	c.(406-408)TCC>TTC	p.S136F	PKD1L2_uc002fgj.2_Missense_Mutation_p.S136F	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	136	Extracellular (Potential).|C-type lectin.				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						CCACTCAGAGGAAGGGCCTCT	0.647													12	31	---	---	---	---	PASS
PKD1L2	114780	broad.mit.edu	37	16	81253771	81253771	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:81253771C>T	uc002fgh.1	-	1	205	c.205G>A	c.(205-207)GAA>AAA	p.E69K	PKD1L2_uc002fgj.2_Missense_Mutation_p.E69K	NM_052892	NP_443124	Q7Z442	PK1L2_HUMAN	polycystin 1-like 2 isoform a	69	Extracellular (Potential).|C-type lectin.				neuropeptide signaling pathway	integral to membrane	calcium ion binding|ion channel activity|sugar binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						TGGGTGCCTTCGTCCTGAATG	0.562													16	43	---	---	---	---	PASS
BCMO1	53630	broad.mit.edu	37	16	81279095	81279095	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:81279095G>A	uc002fgn.1	+	2	298	c.80G>A	c.(79-81)TGG>TAG	p.W27*	BCMO1_uc002fgm.1_Nonsense_Mutation_p.W27*|BCMO1_uc010vnp.1_Missense_Mutation_p.M1I	NM_017429	NP_059125	Q9HAY6	BCDO1_HUMAN	beta-carotene 15,15'-monooxygenase	27					retinoid metabolic process|steroid metabolic process	cytosol	beta-carotene 15,15'-monooxygenase activity|metal ion binding|monooxygenase activity				0						ATTCCAGCATGGCTGCAGGGA	0.512													40	77	---	---	---	---	PASS
BCMO1	53630	broad.mit.edu	37	16	81303772	81303772	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:81303772C>T	uc002fgn.1	+	7	1070	c.852C>T	c.(850-852)ATC>ATT	p.I284I	BCMO1_uc010vnp.1_Silent_p.I215I	NM_017429	NP_059125	Q9HAY6	BCDO1_HUMAN	beta-carotene 15,15'-monooxygenase	284					retinoid metabolic process|steroid metabolic process	cytosol	beta-carotene 15,15'-monooxygenase activity|metal ion binding|monooxygenase activity				0						AGACTTATATCCACATCATCG	0.552													44	74	---	---	---	---	PASS
CMIP	80790	broad.mit.edu	37	16	81735267	81735267	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:81735267C>T	uc002fgp.2	+	16	1830	c.1758C>T	c.(1756-1758)ATC>ATT	p.I586I	CMIP_uc002fgq.1_Silent_p.I492I|CMIP_uc010vnq.1_Silent_p.I399I|CMIP_uc002fgr.1_Silent_p.I433I	NM_198390	NP_938204	Q8IY22	CMIP_HUMAN	c-Maf-inducing protein isoform C-mip	552						cytoplasm|nucleus					0						CTGGACAGATCCTGTGCTTGA	0.557													53	94	---	---	---	---	PASS
PLCG2	5336	broad.mit.edu	37	16	81927410	81927410	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:81927410C>T	uc002fgt.2	+						PLCG2_uc010chg.1_Intron	NM_002661	NP_002652	P16885	PLCG2_HUMAN	phospholipase C, gamma 2						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						GTGAGTAGCTCCTTCTTGGTG	0.483													13	20	---	---	---	---	PASS
LRRC50	123872	broad.mit.edu	37	16	84183953	84183953	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:84183953G>A	uc002fhl.3	+						LRRC50_uc010chi.1_Intron	NM_178452	NP_848547	Q8NEP3	DAAF1_HUMAN	leucine rich repeat containing 50						axonemal dynein complex assembly|cilium morphogenesis	cilium axoneme|cytoplasm|spindle pole	dynein binding				0						TAAAGGTAAGGACCTAAGAGA	0.393									Kartagener_syndrome				8	21	---	---	---	---	PASS
LRRC50	123872	broad.mit.edu	37	16	84188257	84188257	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:84188257A>T	uc002fhl.3	+	4	609	c.428A>T	c.(427-429)AAA>ATA	p.K143I	LRRC50_uc010chi.1_RNA	NM_178452	NP_848547	Q8NEP3	DAAF1_HUMAN	leucine rich repeat containing 50	143	LRR 2.				axonemal dynein complex assembly|cilium morphogenesis	cilium axoneme|cytoplasm|spindle pole	dynein binding				0						GGAATACAGAAAATCGAAAAC	0.473									Kartagener_syndrome				9	46	---	---	---	---	PASS
TAF1C	9013	broad.mit.edu	37	16	84214690	84214690	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:84214690G>A	uc002fhn.2	-	11	1573	c.1345C>T	c.(1345-1347)CCC>TCC	p.P449S	TAF1C_uc002fhm.2_Missense_Mutation_p.P356S|TAF1C_uc010vnx.1_Missense_Mutation_p.P423S|TAF1C_uc010vny.1_Missense_Mutation_p.P40S|TAF1C_uc010vnz.1_Missense_Mutation_p.P117S|TAF1C_uc002fho.2_Intron|TAF1C_uc010voa.1_Missense_Mutation_p.P117S|TAF1C_uc002fhp.1_Intron	NM_005679	NP_005670	Q15572	TAF1C_HUMAN	TBP-associated factor 1C isoform 1	449					regulation of transcription, DNA-dependent|termination of RNA polymerase I transcription|transcription elongation from RNA polymerase I promoter|transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase I promoter	nucleoplasm	DNA binding			ovary(1)	1						AGGCATTTGGGGCTGGAGTGC	0.607													13	25	---	---	---	---	PASS
CRISPLD2	83716	broad.mit.edu	37	16	84872129	84872129	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:84872129C>T	uc010voh.1	+	2	255	c.28C>T	c.(28-30)CCC>TCC	p.P10S	CRISPLD2_uc010vog.1_Missense_Mutation_p.P10S|CRISPLD2_uc002fio.2_Missense_Mutation_p.P10S|CRISPLD2_uc002fik.3_Missense_Mutation_p.P10S|CRISPLD2_uc002fil.2_Missense_Mutation_p.P10S|CRISPLD2_uc002fim.2_Missense_Mutation_p.P10S|CRISPLD2_uc002fin.3_Missense_Mutation_p.P10S	NM_031476	NP_113664	Q9H0B8	CRLD2_HUMAN	cysteine-rich secretory protein LCCL domain	10						extracellular region|transport vesicle					0						TGGTGTCATCCCCTTGGGGCT	0.622													32	61	---	---	---	---	PASS
CRISPLD2	83716	broad.mit.edu	37	16	84906690	84906690	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:84906690C>T	uc010voh.1	+	10	1301	c.1074C>T	c.(1072-1074)TTC>TTT	p.F358F	CRISPLD2_uc010vog.1_Intron|CRISPLD2_uc002fio.2_Silent_p.F357F|CRISPLD2_uc002fim.2_Silent_p.F358F|CRISPLD2_uc002fin.3_Silent_p.F358F	NM_031476	NP_113664	Q9H0B8	CRLD2_HUMAN	cysteine-rich secretory protein LCCL domain	358	LCCL 1.					extracellular region|transport vesicle					0						AGGTCCCCTTCTTCGTGAAGT	0.562													18	41	---	---	---	---	PASS
KIAA0513	9764	broad.mit.edu	37	16	85100745	85100745	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:85100745C>T	uc002fiu.2	+	2	288	c.68C>T	c.(67-69)CCC>CTC	p.P23L	KIAA0513_uc002fis.3_Missense_Mutation_p.P23L|KIAA0513_uc010voj.1_Missense_Mutation_p.P23L|KIAA0513_uc002fit.2_Missense_Mutation_p.P23L	NM_014732	NP_055547	O60268	K0513_HUMAN	hypothetical protein LOC9764	23						cytoplasm				breast(1)	1				BRCA - Breast invasive adenocarcinoma(80;0.234)		ACCTCTTCTCCCCTGGAGGCA	0.647													11	29	---	---	---	---	PASS
IRF8	3394	broad.mit.edu	37	16	85946809	85946809	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:85946809C>T	uc002fjh.2	+	5	577	c.520C>T	c.(520-522)CTT>TTT	p.L174F	IRF8_uc010chp.2_Intron	NM_002163	NP_002154	Q02556	IRF8_HUMAN	interferon regulatory factor 8	174					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)				GAGTCAGCTCCTTCCAGACTG	0.617													20	42	---	---	---	---	PASS
GALNS	2588	broad.mit.edu	37	16	88893133	88893133	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:88893133G>A	uc002fly.3	-	10	1205	c.1116C>T	c.(1114-1116)CTC>CTT	p.L372L	GALNS_uc010cid.2_Silent_p.L378L|GALNS_uc002flz.3_Silent_p.L55L	NM_000512	NP_000503	P34059	GALNS_HUMAN	galactosamine (N-acetyl)-6-sulfate sulfatase	372						lysosome	metal ion binding|N-acetylgalactosamine-4-sulfatase activity|N-acetylgalactosamine-6-sulfatase activity			large_intestine(2)	2				BRCA - Breast invasive adenocarcinoma(80;0.0496)	Hyaluronidase(DB00070)	GGCCCTGCAGGAGGGTGGGGA	0.657													5	5	---	---	---	---	PASS
ZNF778	197320	broad.mit.edu	37	16	89294367	89294367	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:89294367G>A	uc002fmv.2	+	6	1926	c.1587G>A	c.(1585-1587)GAG>GAA	p.E529E	ZNF778_uc010vpf.1_Intron|ZNF778_uc002fmw.1_Silent_p.E487E|ZNF778_uc010vpg.1_Silent_p.E292E	NM_182531	NP_872337	Q96MU6	ZN778_HUMAN	zinc finger protein 778	529					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0269)		CTCACACAGAGGAGAAGCCCT	0.433													14	64	---	---	---	---	PASS
ZNF778	197320	broad.mit.edu	37	16	89294368	89294368	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:89294368G>A	uc002fmv.2	+	6	1927	c.1588G>A	c.(1588-1590)GAG>AAG	p.E530K	ZNF778_uc010vpf.1_Intron|ZNF778_uc002fmw.1_Missense_Mutation_p.E488K|ZNF778_uc010vpg.1_Missense_Mutation_p.E293K	NM_182531	NP_872337	Q96MU6	ZN778_HUMAN	zinc finger protein 778	530					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				BRCA - Breast invasive adenocarcinoma(80;0.0269)		TCACACAGAGGAGAAGCCCTT	0.438													15	62	---	---	---	---	PASS
SPG7	6687	broad.mit.edu	37	16	89598911	89598911	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:89598911C>T	uc002fnj.2	+	9	1212	c.1191C>T	c.(1189-1191)GCC>GCT	p.A397A	SPG7_uc002fni.2_Silent_p.A397A	NM_003119	NP_003110	Q9UQ90	SPG7_HUMAN	spastic paraplegia 7 isoform 1	397	Mitochondrial matrix (Potential).				cell death|nervous system development|protein catabolic process|proteolysis	integral to membrane|mitochondrial membrane	ATP binding|metalloendopeptidase activity|nucleoside-triphosphatase activity|unfolded protein binding|zinc ion binding				0		all_hematologic(23;0.00824)|Colorectal(91;0.102)		all cancers(4;1.39e-07)|OV - Ovarian serous cystadenocarcinoma(4;5.64e-06)|BRCA - Breast invasive adenocarcinoma(80;0.015)		TTAAGGAAGCCCGAGCCCGGG	0.592													5	21	---	---	---	---	PASS
SPG7	6687	broad.mit.edu	37	16	89603290	89603290	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:89603290C>T	uc002fnj.2	+						SPG7_uc002fni.2_Missense_Mutation_p.S481L	NM_003119	NP_003110	Q9UQ90	SPG7_HUMAN	spastic paraplegia 7 isoform 1						cell death|nervous system development|protein catabolic process|proteolysis	integral to membrane|mitochondrial membrane	ATP binding|metalloendopeptidase activity|nucleoside-triphosphatase activity|unfolded protein binding|zinc ion binding				0		all_hematologic(23;0.00824)|Colorectal(91;0.102)		all cancers(4;1.39e-07)|OV - Ovarian serous cystadenocarcinoma(4;5.64e-06)|BRCA - Breast invasive adenocarcinoma(80;0.015)		GAGGGTCATTCGCTCTGCTGG	0.552													33	88	---	---	---	---	PASS
CPNE7	27132	broad.mit.edu	37	16	89657454	89657454	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:89657454G>A	uc002fnp.2	+	14	1511	c.1381G>A	c.(1381-1383)GAT>AAT	p.D461N	CPNE7_uc002fnq.2_Missense_Mutation_p.D386N	NM_014427	NP_055242	Q9UBL6	CPNE7_HUMAN	copine 7 isoform b	461	VWFA.				lipid metabolic process		transporter activity				0		all_hematologic(23;0.0748)		all cancers(4;3.63e-08)|OV - Ovarian serous cystadenocarcinoma(4;1.7e-06)|BRCA - Breast invasive adenocarcinoma(80;0.0147)		CCCTGAGGACGATGAGTGTGA	0.642													9	20	---	---	---	---	PASS
CDK10	8558	broad.mit.edu	37	16	89756978	89756978	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:89756978C>T	uc010cio.2	+	3	221	c.178C>T	c.(178-180)CAG>TAG	p.Q60*	CDK10_uc002foa.2_Nonsense_Mutation_p.Q54*|CDK10_uc010cip.2_5'UTR|CDK10_uc010vpl.1_Nonsense_Mutation_p.Q54*|CDK10_uc002fob.2_5'UTR|CDK10_uc002fod.2_5'UTR|CDK10_uc002foe.2_5'UTR|CDK10_uc002fof.2_5'UTR|CDK10_uc002fog.3_5'UTR|CDK10_uc002foh.3_5'UTR	NM_052988	NP_443714	Q15131	CDK10_HUMAN	cyclin-dependent kinase 10 isoform a	60	Protein kinase.				negative regulation of cell proliferation|traversing start control point of mitotic cell cycle		ATP binding|cyclin-dependent protein kinase activity|protein binding			ovary(1)	1		Lung NSC(15;2.19e-05)|all_lung(18;3.07e-05)|all_hematologic(23;0.0256)		BRCA - Breast invasive adenocarcinoma(80;0.0276)		CCGGGACACCCAGACAGATGA	0.582													19	26	---	---	---	---	PASS
ZNF276	92822	broad.mit.edu	37	16	89804583	89804583	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:89804583G>A	uc002fos.3	+	11	1871	c.1774G>A	c.(1774-1776)GAA>AAA	p.E592K	ZNF276_uc010ciq.2_Missense_Mutation_p.E378K|ZNF276_uc002fop.2_3'UTR|ZNF276_uc002foq.3_Missense_Mutation_p.E517K|ZNF276_uc010cir.2_RNA|ZNF276_uc002for.3_Missense_Mutation_p.E378K|ZNF276_uc010cis.2_Missense_Mutation_p.E351K|ZNF276_uc002fot.3_RNA|ZNF276_uc010vpm.1_Missense_Mutation_p.E430K|ZNF276_uc010cit.1_3'UTR|FANCA_uc002fou.1_3'UTR|FANCA_uc010vpn.1_3'UTR	NM_001113525	NP_001106997	Q8N554	ZN276_HUMAN	zinc finger protein 276 isoform a	592					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Lung NSC(15;2.19e-05)|all_lung(18;3.07e-05)|all_hematologic(23;0.0256)		BRCA - Breast invasive adenocarcinoma(80;0.0278)		CCTGGAGGCGGAACCACCACC	0.647													4	8	---	---	---	---	PASS
TUBB3	10381	broad.mit.edu	37	16	90002183	90002183	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:90002183G>A	uc002fph.1	+	4	1389	c.1324G>A	c.(1324-1326)GAG>AAG	p.E442K	TUBB3_uc002fpf.2_Missense_Mutation_p.E789K|TUBB3_uc010ciz.1_Missense_Mutation_p.E370K|TUBB3_uc002fpg.1_Missense_Mutation_p.E296K|TUBB3_uc002fpi.1_Missense_Mutation_p.E370K|TUBB3_uc002fpj.1_Missense_Mutation_p.E370K|TUBB3_uc010cjb.1_Missense_Mutation_p.E296K|TUBB3_uc002fpk.1_Missense_Mutation_p.E296K	NM_006086	NP_006077	Q13509	TBB3_HUMAN	tubulin, beta, 4	442					'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)		AGACGACGAGGAGGAGTCGGA	0.657													23	34	---	---	---	---	PASS
GAS8	2622	broad.mit.edu	37	16	90103747	90103747	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:90103747G>A	uc002fqi.1	+	7	986	c.864G>A	c.(862-864)GAG>GAA	p.E288E	GAS8_uc010vps.1_Silent_p.E263E|GAS8_uc002fqh.2_Silent_p.E205E|GAS8_uc010vpt.1_3'UTR|GAS8_uc010vpu.1_3'UTR|GAS8_uc010vpv.1_Silent_p.E259E|GAS8_uc010cjc.1_Silent_p.E205E|GAS8_uc010vpw.1_Silent_p.E205E|GAS8_uc002fqj.1_Silent_p.E96E	NM_001481	NP_001472	O95995	GAS8_HUMAN	growth arrest-specific 8	288	Potential.				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)		AGGCTCGGGAGGAGATGAGCG	0.582													12	17	---	---	---	---	PASS
SLC43A2	124935	broad.mit.edu	37	17	1518261	1518261	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:1518261G>A	uc002fsv.2	-						SLC43A2_uc002fsu.2_Intron|SLC43A2_uc002fsw.2_Intron|SLC43A2_uc002fsx.2_Intron	NM_152346	NP_689559	Q8N370	LAT4_HUMAN	solute carrier family 43, member 2						cellular nitrogen compound metabolic process|ion transport	integral to membrane|plasma membrane					0				UCEC - Uterine corpus endometrioid carcinoma (25;0.0883)		GATGGAGGGAGAGGACACTCA	0.572													3	20	---	---	---	---	PASS
SCARF1	8578	broad.mit.edu	37	17	1538884	1538884	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:1538884G>A	uc002fsz.1	-	11	1711	c.1661C>T	c.(1660-1662)TCG>TTG	p.S554L	SCARF1_uc002fsy.1_Missense_Mutation_p.R542C|SCARF1_uc002fta.1_RNA|SCARF1_uc010cjv.1_Missense_Mutation_p.S468L	NM_003693	NP_003684	Q14162	SREC_HUMAN	scavenger receptor class F, member 1 isoform 1	554	Pro/Ser-rich.|Cytoplasmic (Potential).				cell adhesion|neuron remodeling|positive regulation of axon regeneration|receptor-mediated endocytosis	integral to membrane	low-density lipoprotein particle binding|scavenger receptor activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		GGCCTCTGACGACCCTGCCTG	0.667													8	2	---	---	---	---	PASS
SCARF1	8578	broad.mit.edu	37	17	1542192	1542192	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:1542192G>A	uc002fsz.1	-	8	1322	c.1272C>T	c.(1270-1272)ATC>ATT	p.I424I	SCARF1_uc002fsy.1_Silent_p.I424I|SCARF1_uc002fta.1_RNA|SCARF1_uc010cjv.1_Silent_p.I338I	NM_003693	NP_003684	Q14162	SREC_HUMAN	scavenger receptor class F, member 1 isoform 1	424	Helical; (Potential).				cell adhesion|neuron remodeling|positive regulation of axon regeneration|receptor-mediated endocytosis	integral to membrane	low-density lipoprotein particle binding|scavenger receptor activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		GGCTGCCCGCGATGAGGGCAG	0.627													6	23	---	---	---	---	PASS
SCARF1	8578	broad.mit.edu	37	17	1543015	1543015	+	Silent	SNP	G	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:1543015G>C	uc002fsz.1	-	7	1211	c.1161C>G	c.(1159-1161)GCC>GCG	p.A387A	SCARF1_uc002fsy.1_Silent_p.A387A|SCARF1_uc002fta.1_RNA|SCARF1_uc010cjv.1_Intron	NM_003693	NP_003684	Q14162	SREC_HUMAN	scavenger receptor class F, member 1 isoform 1	387	Extracellular (Potential).				cell adhesion|neuron remodeling|positive regulation of axon regeneration|receptor-mediated endocytosis	integral to membrane	low-density lipoprotein particle binding|scavenger receptor activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		CATGGAAACCGGCTGGGCAGG	0.602													6	4	---	---	---	---	PASS
SCARF1	8578	broad.mit.edu	37	17	1543206	1543206	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:1543206C>T	uc002fsz.1	-	6	1189	c.1139G>A	c.(1138-1140)AGC>AAC	p.S380N	SCARF1_uc002fsy.1_Missense_Mutation_p.S380N|SCARF1_uc002fta.1_RNA|SCARF1_uc010cjv.1_Intron	NM_003693	NP_003684	Q14162	SREC_HUMAN	scavenger receptor class F, member 1 isoform 1	380	Extracellular (Potential).|EGF-like 6.				cell adhesion|neuron remodeling|positive regulation of axon regeneration|receptor-mediated endocytosis	integral to membrane	low-density lipoprotein particle binding|scavenger receptor activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (25;0.0822)		CCATCCTTACCTGGGCCCCCA	0.617													11	19	---	---	---	---	PASS
PRPF8	10594	broad.mit.edu	37	17	1582317	1582317	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:1582317G>A	uc002fte.2	-	11	1707	c.1593C>T	c.(1591-1593)ACC>ACT	p.T531T		NM_006445	NP_006436	Q6P2Q9	PRP8_HUMAN	U5 snRNP-specific protein	531						catalytic step 2 spliceosome|nuclear speck|U5 snRNP	protein binding|RNA binding			lung(4)|ovary(2)	6				UCEC - Uterine corpus endometrioid carcinoma (25;0.0855)		GCACCTTGGTGGTGAGCGTTT	0.522													17	69	---	---	---	---	PASS
OR1D4	8385	broad.mit.edu	37	17	2966538	2966538	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:2966538G>A	uc010vra.1	-	1	418	c.418C>T	c.(418-420)CGC>TGC	p.R140C		NM_003552	NP_003543			olfactory receptor, family 1, subfamily D,												0						GCCACATAGCGATCATACGCC	0.567													5	25	---	---	---	---	PASS
OR1D2	4991	broad.mit.edu	37	17	2996075	2996075	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:2996075G>A	uc010vrb.1	-	1	216	c.216C>T	c.(214-216)TTC>TTT	p.F72F		NM_002548	NP_002539	P34982	OR1D2_HUMAN	olfactory receptor, family 1, subfamily D,	72	Helical; Name=2; (Potential).				cellular component movement|chemotaxis|protein import into nucleus, translocation|sensory perception of smell|single fertilization	integral to plasma membrane	olfactory receptor activity			ovary(1)	1						TGGTGACAAAGAAGAGGTCAG	0.532													50	90	---	---	---	---	PASS
OR3A4	390756	broad.mit.edu	37	17	3214417	3214417	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:3214417G>A	uc002fvi.2	+	1	879	c.813G>A	c.(811-813)TCG>TCA	p.S271S		NR_024128				RecName: Full=Olfactory receptor 3A4; AltName: Full=Olfactory receptor 17-24;          Short=OR17-24;											ovary(1)	1						TGGAGTCTTCGGACAAGGACA	0.552													12	60	---	---	---	---	PASS
CAMKK1	84254	broad.mit.edu	37	17	3779583	3779583	+	Silent	SNP	C	A	A	rs148844492	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:3779583C>A	uc002fwt.2	-	10	1024	c.930G>T	c.(928-930)ACG>ACT	p.T310T	CAMKK1_uc002fwu.2_Silent_p.T310T|CAMKK1_uc002fwv.2_Silent_p.T348T	NM_172206	NP_757343	Q8N5S9	KKCC1_HUMAN	calcium/calmodulin-dependent protein kinase 1	310	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)		GGGTTCCCGCCGTGCTGGACA	0.627													4	30	---	---	---	---	PASS
ATP2A3	489	broad.mit.edu	37	17	3845967	3845967	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:3845967G>A	uc002fxb.1	-	12	1629	c.1478C>T	c.(1477-1479)TCC>TTC	p.S493F	ATP2A3_uc002fwx.1_Missense_Mutation_p.S493F|ATP2A3_uc002fwy.1_Missense_Mutation_p.S493F|ATP2A3_uc002fwz.1_Missense_Mutation_p.S493F|ATP2A3_uc002fxa.1_Missense_Mutation_p.S493F|ATP2A3_uc002fxc.1_Missense_Mutation_p.S493F|ATP2A3_uc002fxd.1_Missense_Mutation_p.S493F	NM_174955	NP_777615	Q93084	AT2A3_HUMAN	ATPase, Ca++ transporting, ubiquitous isoform b	493	Cytoplasmic (By similarity).				ATP biosynthetic process|platelet activation	integral to membrane|nuclear membrane|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	ATP binding|calcium-transporting ATPase activity|metal ion binding|protein binding			ovary(3)|breast(1)|central_nervous_system(1)	5				LUAD - Lung adenocarcinoma(1115;0.000692)|Lung(3;0.0766)		CACGGACATGGATTTCCGGTC	0.642													21	31	---	---	---	---	PASS
ATP2A3	489	broad.mit.edu	37	17	3846781	3846781	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:3846781C>T	uc002fxb.1	-	11	1474	c.1323G>A	c.(1321-1323)ACG>ACA	p.T441T	ATP2A3_uc002fwx.1_Silent_p.T441T|ATP2A3_uc002fwy.1_Silent_p.T441T|ATP2A3_uc002fwz.1_Silent_p.T441T|ATP2A3_uc002fxa.1_Silent_p.T441T|ATP2A3_uc002fxc.1_Silent_p.T441T|ATP2A3_uc002fxd.1_Silent_p.T441T	NM_174955	NP_777615	Q93084	AT2A3_HUMAN	ATPase, Ca++ transporting, ubiquitous isoform b	441	Cytoplasmic (By similarity).				ATP biosynthetic process|platelet activation	integral to membrane|nuclear membrane|platelet dense tubular network membrane|sarcoplasmic reticulum membrane	ATP binding|calcium-transporting ATPase activity|metal ion binding|protein binding			ovary(3)|breast(1)|central_nervous_system(1)	5				LUAD - Lung adenocarcinoma(1115;0.000692)|Lung(3;0.0766)		GAGCTGTCTCCGTGGCCTCTC	0.637													28	72	---	---	---	---	PASS
ZZEF1	23140	broad.mit.edu	37	17	3966127	3966127	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:3966127G>A	uc002fxe.2	-	30	4867	c.4803C>T	c.(4801-4803)TCC>TCT	p.S1601S	ZZEF1_uc002fxh.2_5'UTR|ZZEF1_uc002fxi.2_5'UTR|ZZEF1_uc002fxj.1_Silent_p.S214S	NM_015113	NP_055928	O43149	ZZEF1_HUMAN	zinc finger, ZZ type with EF hand domain 1	1601							calcium ion binding|zinc ion binding			ovary(2)|central_nervous_system(1)|pancreas(1)	4						GCTGCCCAAGGGATTCTGCAC	0.488													4	15	---	---	---	---	PASS
PLD2	5338	broad.mit.edu	37	17	4722448	4722448	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:4722448C>T	uc002fzc.2	+	22	2344	c.2243C>T	c.(2242-2244)CCC>CTC	p.P748L	PLD2_uc002fzd.2_Missense_Mutation_p.P748L	NM_002663	NP_002654	O14939	PLD2_HUMAN	phospholipase D2	748	Catalytic.				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)	GGCGGGCACCCCGTCTCGGAG	0.597													9	31	---	---	---	---	PASS
PLD2	5338	broad.mit.edu	37	17	4722449	4722449	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:4722449C>T	uc002fzc.2	+	22	2345	c.2244C>T	c.(2242-2244)CCC>CCT	p.P748P	PLD2_uc002fzd.2_Silent_p.P748P	NM_002663	NP_002654	O14939	PLD2_HUMAN	phospholipase D2	748	Catalytic.				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)	GCGGGCACCCCGTCTCGGAGC	0.597													10	29	---	---	---	---	PASS
MINK1	50488	broad.mit.edu	37	17	4799981	4799981	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:4799981C>T	uc010vsl.1	+	31	3984	c.3788C>T	c.(3787-3789)TCC>TTC	p.S1263F	MINK1_uc010vsk.1_Missense_Mutation_p.S1234F|MINK1_uc010vsm.1_Missense_Mutation_p.S1243F|MINK1_uc010vsn.1_Missense_Mutation_p.S1226F|MINK1_uc010vso.1_Missense_Mutation_p.S1171F|MINK1_uc010vsp.1_Missense_Mutation_p.S724F|C17orf107_uc010ckr.2_5'Flank|C17orf107_uc002fzl.3_5'Flank	NM_153827	NP_722549	Q8N4C8	MINK1_HUMAN	misshapen-like kinase 1 isoform 3	1263	Mediates interaction with RAP2A.|CNH.				JNK cascade	cytoplasm	ATP binding|protein binding|protein serine/threonine kinase activity|small GTPase regulator activity			central_nervous_system(2)|stomach(1)|large_intestine(1)|lung(1)|skin(1)	6						TACATCTGCTCCAACCAGATA	0.637													7	9	---	---	---	---	PASS
CHRNE	1145	broad.mit.edu	37	17	4805916	4805916	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:4805916C>T	uc002fzk.1	-	2	200	c.189G>A	c.(187-189)CTG>CTA	p.L63L	C17orf107_uc002fzl.3_3'UTR	NM_000080	NP_000071	Q04844	ACHE_HUMAN	nicotinic acetylcholine receptor epsilon	63	Extracellular (Potential).				muscle contraction|synaptic transmission, cholinergic	cell junction|nicotinic acetylcholine-gated receptor-channel complex|postsynaptic membrane	acetylcholine receptor activity|nicotinic acetylcholine-activated cation-selective channel activity				0						GGTAGCTTACCAGTGAGATGA	0.532													44	82	---	---	---	---	PASS
RNF167	26001	broad.mit.edu	37	17	4848088	4848088	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:4848088G>T	uc002fzq.2	+	11	1246	c.830G>T	c.(829-831)CGG>CTG	p.R277L	RNF167_uc002fzr.2_Missense_Mutation_p.R277L|RNF167_uc002fzs.2_Missense_Mutation_p.R277L|RNF167_uc002fzt.2_Missense_Mutation_p.R277L|RNF167_uc002fzu.2_Missense_Mutation_p.R276L|RNF167_uc002fzv.2_Missense_Mutation_p.R242L|RNF167_uc002fzx.2_Missense_Mutation_p.R241L|RNF167_uc002fzy.2_Missense_Mutation_p.R76L	NM_015528	NP_056343	Q9H6Y7	RN167_HUMAN	ring finger protein 167 precursor	277					negative regulation of cell cycle|protein polyubiquitination	cytoplasm|endomembrane system|integral to membrane	protein binding|ubiquitin-protein ligase activity|zinc ion binding				0						CCTGTTCATCGGGGTCCTGGG	0.597													5	57	---	---	---	---	PASS
SPAG7	9552	broad.mit.edu	37	17	4863819	4863819	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:4863819G>A	uc002gae.2	-	3	210	c.177C>T	c.(175-177)TTC>TTT	p.F59F	SPAG7_uc002gad.2_Silent_p.F8F|SPAG7_uc002gaf.2_Silent_p.F59F	NM_004890	NP_004881	O75391	SPAG7_HUMAN	sperm associated antigen 7	59	R3H.					nucleus	nucleic acid binding|protein binding			ovary(1)|central_nervous_system(1)	2						TGTCTTGAATGAAATCTGACA	0.522													34	51	---	---	---	---	PASS
KIF1C	10749	broad.mit.edu	37	17	4906956	4906956	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:4906956C>T	uc002gan.1	+	9	1096	c.770C>T	c.(769-771)TCC>TTC	p.S257F		NM_006612	NP_006603	O43896	KIF1C_HUMAN	kinesin family member 1C	257	Kinesin-motor.				microtubule-based movement|retrograde vesicle-mediated transport, Golgi to ER	endoplasmic reticulum|Golgi apparatus|microtubule	ATP binding|microtubule motor activity			breast(2)	2						CGAGCCGACTCCTCAGGGGCC	0.622													13	2	---	---	---	---	PASS
KIF1C	10749	broad.mit.edu	37	17	4906957	4906957	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:4906957C>T	uc002gan.1	+	9	1097	c.771C>T	c.(769-771)TCC>TCT	p.S257S		NM_006612	NP_006603	O43896	KIF1C_HUMAN	kinesin family member 1C	257	Kinesin-motor.				microtubule-based movement|retrograde vesicle-mediated transport, Golgi to ER	endoplasmic reticulum|Golgi apparatus|microtubule	ATP binding|microtubule motor activity			breast(2)	2						GAGCCGACTCCTCAGGGGCCC	0.622													13	2	---	---	---	---	PASS
RABEP1	9135	broad.mit.edu	37	17	5211983	5211983	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:5211983C>T	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	Q15276	RABE1_HUMAN	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						TGTTTTTTTCCCCCAGTTTCT	0.308													5	13	---	---	---	---	PASS
AIPL1	23746	broad.mit.edu	37	17	6329102	6329102	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:6329102C>T	uc002gcp.2	-	6	928	c.833G>A	c.(832-834)TGG>TAG	p.W278*	AIPL1_uc002gcq.2_Nonsense_Mutation_p.W218*|AIPL1_uc002gcr.2_Nonsense_Mutation_p.W215*|AIPL1_uc010clk.2_Nonsense_Mutation_p.W256*|AIPL1_uc010cll.2_Nonsense_Mutation_p.W254*|AIPL1_uc002gcs.2_3'UTR	NM_014336	NP_055151	Q9NZN9	AIPL1_HUMAN	aryl hydrocarbon receptor interacting	278	TPR 3.				protein farnesylation|protein folding|visual perception	cytoplasm|nucleus	farnesylated protein binding|unfolded protein binding				0				COAD - Colon adenocarcinoma(228;0.141)		GGCCTCATTCCACACCTCTGC	0.657													16	12	---	---	---	---	PASS
C17orf81	23587	broad.mit.edu	37	17	7157892	7157892	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7157892C>T	uc002gfg.1	+						DULLARD_uc002gfd.2_5'Flank|DULLARD_uc002gfe.2_5'Flank|DULLARD_uc002gff.2_5'Flank|DULLARD_uc002gfc.2_5'Flank|C17orf81_uc002gfj.2_Intron|C17orf81_uc010cmb.2_Intron|C17orf81_uc002gfh.1_Intron|C17orf81_uc002gfi.1_Intron|C17orf81_uc002gfk.1_Intron|C17orf81_uc002gfl.1_Intron	NM_203415	NP_981960	Q8TE02	DERP6_HUMAN	S-phase 2 protein isoform 4						regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	protein binding				0						GTCTTATTTTCCCTTTGCAGG	0.463													4	16	---	---	---	---	PASS
SLC2A4	6517	broad.mit.edu	37	17	7186595	7186595	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7186595G>A	uc002gfp.2	+	2	265	c.65G>A	c.(64-66)GGG>GAG	p.G22E	SLC2A4_uc002gfo.2_Missense_Mutation_p.G22E|SLC2A4_uc010cmd.2_RNA	NM_001042	NP_001033	P14672	GTR4_HUMAN	glucose transporter 4	22	Cytoplasmic (Potential).				carbohydrate metabolic process|glucose homeostasis|glucose import	external side of plasma membrane|integral to plasma membrane|perinuclear region of cytoplasm	D-glucose transmembrane transporter activity|protein binding				0						CGAGTGACTGGGACCCTGGTC	0.567													22	31	---	---	---	---	PASS
KCTD11	147040	broad.mit.edu	37	17	7256759	7256759	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7256759C>T	uc002gge.3	+	1	1552	c.498C>T	c.(496-498)CTC>CTT	p.L166L	TMEM95_uc002ggf.1_5'Flank|TMEM95_uc002ggg.1_5'Flank|TMEM95_uc002ggh.1_5'Flank	NM_001002914	NP_001002914	Q693B1	KCD11_HUMAN	potassium channel tetramerisation domain	166					cell cycle|regulation of growth	voltage-gated potassium channel complex	voltage-gated potassium channel activity				0		Prostate(122;0.157)				CCGTGGAACTCCCCGAGGTGG	0.677													3	11	---	---	---	---	PASS
SPEM1	374768	broad.mit.edu	37	17	7324589	7324589	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7324589G>A	uc002ggv.2	+	3	620	c.595G>A	c.(595-597)GGC>AGC	p.G199S	FGF11_uc010vtw.1_Intron	NM_199339	NP_955371	Q8N4L4	SPEM1_HUMAN	spermatid maturation 1	199					cell differentiation|multicellular organismal development|spermatogenesis	cytoplasm|integral to membrane					0		Prostate(122;0.173)				GTCCGAGCTGGGCCTAAGGGC	0.637													11	34	---	---	---	---	PASS
EIF4A1	1973	broad.mit.edu	37	17	7476179	7476179	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7476179C>T	uc002gho.1	+	9	1345	c.20C>T	c.(19-21)TCC>TTC	p.S7F	EIF4A1_uc002ghr.1_Missense_Mutation_p.S7F|EIF4A1_uc002ghq.1_Missense_Mutation_p.S7F|EIF4A1_uc002ghp.1_Missense_Mutation_p.S7F|SNORA48_uc002ghs.1_5'Flank	NM_001416	NP_001407	P60842	IF4A1_HUMAN	eukaryotic translation initiation factor 4A	7					nuclear-transcribed mRNA poly(A) tail shortening	cytosol|eukaryotic translation initiation factor 4F complex	ATP binding|ATP-dependent helicase activity|mRNA binding|protein binding|RNA cap binding|translation initiation factor activity			ovary(1)	1						AGCCAGGATTCCCGGTAAGAA	0.607													34	59	---	---	---	---	PASS
DNAH2	146754	broad.mit.edu	37	17	7678246	7678246	+	Silent	SNP	A	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7678246A>C	uc002giu.1	+	28	4685	c.4671A>C	c.(4669-4671)CCA>CCC	p.P1557P		NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	1557	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)				CTGTGCAGCCACACCTCAAAA	0.517													11	24	---	---	---	---	PASS
DNAH2	146754	broad.mit.edu	37	17	7695565	7695565	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7695565C>T	uc002giu.1	+							NM_020877	NP_065928	Q9P225	DYH2_HUMAN	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)				ACATGCCCTCCTTAGGACACG	0.522													15	39	---	---	---	---	PASS
DNAH2	146754	broad.mit.edu	37	17	7705318	7705318	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7705318C>T	uc002giu.1	+	57	8969	c.8955C>T	c.(8953-8955)CTC>CTT	p.L2985L	DNAH2_uc010cnm.1_5'Flank	NM_020877	NP_065928	Q9P225	DYH2_HUMAN	dynein heavy chain domain 3	2985					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)				ACCTGGAACTCCTGTCTGGAT	0.512													16	27	---	---	---	---	PASS
KDM6B	23135	broad.mit.edu	37	17	7749997	7749997	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7749997C>T	uc002giw.1	+	8	1026	c.650C>T	c.(649-651)CCC>CTC	p.P217L	KDM6B_uc002gix.2_5'Flank	NM_001080424	NP_001073893	O15054	KDM6B_HUMAN	lysine (K)-specific demethylase 6B	217	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						CTCTCAGGCCCCTCAGGGGAG	0.642													12	32	---	---	---	---	PASS
ALOX15B	247	broad.mit.edu	37	17	7945806	7945806	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7945806C>T	uc002gju.2	+	4	685	c.569C>T	c.(568-570)TCT>TTT	p.S190F	ALOX15B_uc002gjv.2_Missense_Mutation_p.S190F|ALOX15B_uc002gjw.2_Missense_Mutation_p.S190F|ALOX15B_uc010vun.1_Missense_Mutation_p.S190F|ALOX15B_uc010cnp.2_5'UTR	NM_001141	NP_001132	O15296	LX15B_HUMAN	arachidonate 15-lipoxygenase, second type	190	Lipoxygenase.				induction of apoptosis|leukotriene biosynthetic process|negative regulation of cell cycle|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of growth|prostate gland development|regulation of epithelial cell differentiation	cytoplasm	arachidonate 15-lipoxygenase activity|iron ion binding|lipoxygenase activity			ovary(1)	1						CAGGCTGGCTCTGCGTGAGGA	0.547													9	30	---	---	---	---	PASS
PER1	5187	broad.mit.edu	37	17	8053942	8053942	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:8053942G>A	uc002gkd.2	-	2	321	c.83C>T	c.(82-84)CCT>CTT	p.P28L	PER1_uc010vuq.1_RNA|PER1_uc010vur.1_Intron|PER1_uc010vus.1_Missense_Mutation_p.P28L	NM_002616	NP_002607	O15534	PER1_HUMAN	period 1	28					circadian rhythm|entrainment of circadian clock|negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleus	signal transducer activity			lung(2)|breast(2)|skin(2)|large_intestine(1)|ovary(1)|kidney(1)	9						TGGGGGCCCAGGGGATGGGAC	0.652			T	ETV6	AML|CMML			Other_conserved_DNA_damage_response_genes					15	25	---	---	---	---	PASS
C17orf68	80169	broad.mit.edu	37	17	8138499	8138499	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:8138499C>T	uc002gkq.3	-	8	1370	c.1311G>A	c.(1309-1311)CAG>CAA	p.Q437Q	C17orf68_uc010cnv.2_RNA	NM_025099	NP_079375	Q2NKJ3	CTC1_HUMAN	alpha accessory factor 132	437					positive regulation of DNA replication|telomere maintenance	Stn1-Ten1 complex	protein binding|single-stranded DNA binding				0						CCCCAGGCTTCTGACGAGAGA	0.617													49	17	---	---	---	---	PASS
MFSD6L	162387	broad.mit.edu	37	17	8700739	8700739	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:8700739G>A	uc002glp.1	-	1	1848	c.1700C>T	c.(1699-1701)TCT>TTT	p.S567F		NM_152599	NP_689812	Q8IWD5	MFS6L_HUMAN	major facilitator superfamily domain containing	567						integral to membrane				central_nervous_system(1)	1						CCCCTGCTCAGAGTCACTGGT	0.557													13	36	---	---	---	---	PASS
PIK3R5	23533	broad.mit.edu	37	17	8785136	8785136	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:8785136G>A	uc002glt.2	-	16	2335	c.2268C>T	c.(2266-2268)CTC>CTT	p.L756L	PIK3R5_uc010vuz.1_Silent_p.L756L|PIK3R5_uc002glu.3_Silent_p.L370L	NM_014308	NP_055123	Q8WYR1	PI3R5_HUMAN	phosphoinositide-3-kinase, regulatory subunit 5	756					platelet activation	cytosol|membrane|nucleus				breast(2)|large_intestine(1)|central_nervous_system(1)|skin(1)	5						AGGCCTTGTTGAGGTTCACGG	0.612													13	28	---	---	---	---	PASS
WDR16	146845	broad.mit.edu	37	17	9538775	9538775	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:9538775G>A	uc002gly.2	+	11	1443	c.1374G>A	c.(1372-1374)AAG>AAA	p.K458K	WDR16_uc002glz.2_Silent_p.K390K|WDR16_uc010coc.2_Silent_p.K468K	NM_145054	NP_659491	Q8N1V2	WDR16_HUMAN	WD40-repeat protein upregulated in HCC isoform	458						cytoplasm|intracellular membrane-bounded organelle	protein binding			skin(2)|ovary(1)|central_nervous_system(1)	4						AGGCCCTGAAGGAACACAAGT	0.532													15	22	---	---	---	---	PASS
MYH13	8735	broad.mit.edu	37	17	10227347	10227347	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10227347C>T	uc002gmk.1	-	23	3016	c.2926G>A	c.(2926-2928)GAG>AAG	p.E976K	MYH13_uc010vve.1_Missense_Mutation_p.E74K	NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	976	Potential.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						ACCTTGTTCTCTGTGGCATGC	0.488													15	21	---	---	---	---	PASS
MYH13	8735	broad.mit.edu	37	17	10235428	10235428	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10235428G>A	uc002gmk.1	-	20	2376	c.2286C>T	c.(2284-2286)TTC>TTT	p.F762F		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	762	Myosin head-like.|Actin-binding (By similarity).				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						TGGTGTTGCCGAACCTGAACT	0.547													27	29	---	---	---	---	PASS
MYH13	8735	broad.mit.edu	37	17	10247140	10247140	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10247140G>A	uc002gmk.1	-	16	1961	c.1871C>T	c.(1870-1872)TCC>TTC	p.S624F	MYH13_uc010vvf.1_Missense_Mutation_p.S299F	NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	624	Myosin head-like.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						AGCATAGTTGGAAAAAAGGAA	0.488													24	22	---	---	---	---	PASS
MYH13	8735	broad.mit.edu	37	17	10261144	10261144	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10261144C>T	uc002gmk.1	-	8	736	c.646G>A	c.(646-648)GGA>AGA	p.G216R		NM_003802	NP_003793	Q9UKX3	MYH13_HUMAN	myosin, heavy polypeptide 13, skeletal muscle	216	Myosin head-like.				muscle contraction	muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|microfilament motor activity			ovary(4)|skin(2)	6						TCTAGGGTTCCCTAATAATAA	0.458													11	46	---	---	---	---	PASS
MYH8	4626	broad.mit.edu	37	17	10296201	10296201	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10296201C>A	uc002gmm.2	-	37	5505	c.5410G>T	c.(5410-5412)GAG>TAG	p.E1804*	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	1804	Potential.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						GCCAGCTGCTCGGCCTCATCT	0.572									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				4	68	---	---	---	---	PASS
MYH8	4626	broad.mit.edu	37	17	10304884	10304884	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10304884C>T	uc002gmm.2	-	23	3002	c.2907G>A	c.(2905-2907)AAG>AAA	p.K969K	uc002gml.1_Intron	NM_002472	NP_002463	P13535	MYH8_HUMAN	myosin, heavy chain 8, skeletal muscle,	969	Potential.				muscle filament sliding	cytosol|muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity|structural constituent of muscle			skin(6)|ovary(3)|breast(2)	11						CATGTTTCTCCTTCTCAACCT	0.408									Trismus-Pseudocamptodactyly_Syndrome_with_Cardiac_Myxoma_and_Freckling				38	122	---	---	---	---	PASS
MYH4	4622	broad.mit.edu	37	17	10351386	10351386	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10351386C>T	uc002gmn.2	-	34	4825	c.4714G>A	c.(4714-4716)GTG>ATG	p.V1572M	uc002gml.1_Intron	NM_017533	NP_060003	Q9Y623	MYH4_HUMAN	myosin, heavy polypeptide 4, skeletal muscle	1572	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						TCAGATTTCACCTGATTTAGC	0.373													18	27	---	---	---	---	PASS
MYH1	4619	broad.mit.edu	37	17	10399723	10399723	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10399723G>A	uc002gmo.2	-	34	4894	c.4800C>T	c.(4798-4800)TCC>TCT	p.S1600S	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1600	Potential.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						TGCTCTGCATGGACTCCACGA	0.438													38	65	---	---	---	---	PASS
MYH1	4619	broad.mit.edu	37	17	10405195	10405195	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10405195G>A	uc002gmo.2	-	25	3239	c.3145C>T	c.(3145-3147)CGG>TGG	p.R1049W	uc002gml.1_Intron	NM_005963	NP_005954	P12882	MYH1_HUMAN	myosin, heavy chain 1, skeletal muscle, adult	1049	Potential.					muscle myosin complex|myofibril|myosin filament	actin binding|ATP binding|calmodulin binding|motor activity			ovary(10)|skin(6)|breast(3)|upper_aerodigestive_tract(1)|kidney(1)	21						AGATCCATCCGGATTTTCTTT	0.348													17	13	---	---	---	---	PASS
MYH2	4620	broad.mit.edu	37	17	10427837	10427837	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10427837G>A	uc010coi.2	-	35	5249	c.5121C>T	c.(5119-5121)ATC>ATT	p.I1707I	uc002gml.1_Intron|MYH2_uc002gmp.3_Silent_p.I1707I|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1707	Potential.				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						CCTGTTCTGCGATTTTTCTGC	0.542													22	37	---	---	---	---	PASS
MYH2	4620	broad.mit.edu	37	17	10429160	10429160	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10429160C>T	uc010coi.2	-	31	4349	c.4221G>A	c.(4219-4221)GAG>GAA	p.E1407E	uc002gml.1_Intron|MYH2_uc002gmp.3_Silent_p.E1407E|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	1407	Potential.				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						CTACATGTTCCTCAGCTGCCT	0.478													5	26	---	---	---	---	PASS
MYH2	4620	broad.mit.edu	37	17	10438597	10438597	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10438597G>A	uc010coi.2	-	18	2188	c.2060C>T	c.(2059-2061)CCT>CTT	p.P687L	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.P687L|MYH2_uc010coj.2_Intron	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	687	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						TTTCTTACCAGGAGTTTTTGT	0.423													7	18	---	---	---	---	PASS
MYH2	4620	broad.mit.edu	37	17	10443353	10443353	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10443353C>T	uc010coi.2	-	12	1167	c.1039G>A	c.(1039-1041)GAA>AAA	p.E347K	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.E347K|MYH2_uc010coj.2_Missense_Mutation_p.E347K	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	347	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						ACCTTTTCTTCATTAGTAAAG	0.423													21	74	---	---	---	---	PASS
MYH2	4620	broad.mit.edu	37	17	10447437	10447437	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10447437C>T	uc010coi.2	-	6	641	c.513G>A	c.(511-513)GAG>GAA	p.E171E	uc002gml.1_Intron|MYH2_uc002gmp.3_Silent_p.E171E|MYH2_uc010coj.2_Silent_p.E171E	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	171	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						TTGACTGATTCTCTCGGTCTA	0.308													14	32	---	---	---	---	PASS
MYH2	4620	broad.mit.edu	37	17	10447438	10447438	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10447438T>C	uc010coi.2	-	6	640	c.512A>G	c.(511-513)GAG>GGG	p.E171G	uc002gml.1_Intron|MYH2_uc002gmp.3_Missense_Mutation_p.E171G|MYH2_uc010coj.2_Missense_Mutation_p.E171G	NM_001100112	NP_001093582	Q9UKX2	MYH2_HUMAN	myosin heavy chain IIa	171	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						TGACTGATTCTCTCGGTCTAC	0.313													12	32	---	---	---	---	PASS
MYH3	4621	broad.mit.edu	37	17	10543646	10543646	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:10543646G>A	uc002gmq.1	-							NM_002470	NP_002461	P11055	MYH3_HUMAN	myosin, heavy chain 3, skeletal muscle,						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						AGACCCTGCTGGACCTCCTCT	0.517													17	55	---	---	---	---	PASS
DNAH9	1770	broad.mit.edu	37	17	11572550	11572550	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:11572550C>T	uc002gne.2	+	16	2969	c.2901C>T	c.(2899-2901)TCC>TCT	p.S967S	DNAH9_uc010coo.2_Silent_p.S261S	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	967	Stem (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		CACGGCTTTCCCCACAAAATG	0.542													16	45	---	---	---	---	PASS
DNAH9	1770	broad.mit.edu	37	17	11572867	11572867	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:11572867C>T	uc002gne.2	+	17	3177	c.3109C>T	c.(3109-3111)CCG>TCG	p.P1037S	DNAH9_uc010coo.2_Missense_Mutation_p.P331S	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	1037	Stem (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		CATCCTCACTCCGGAAGAAAT	0.502													24	64	---	---	---	---	PASS
DNAH9	1770	broad.mit.edu	37	17	11648319	11648319	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:11648319G>A	uc002gne.2	+	31	6385	c.6317G>A	c.(6316-6318)AGG>AAG	p.R2106K	DNAH9_uc010coo.2_Missense_Mutation_p.R1400K	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	2106					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)		GTCCCCCGGAGGAGAGACCCC	0.532													12	48	---	---	---	---	PASS
DNAH9	1770	broad.mit.edu	37	17	11809111	11809111	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:11809111G>A	uc002gne.2	+	61	11802	c.11734G>A	c.(11734-11736)GAT>AAT	p.D3912N	DNAH9_uc010coo.2_Missense_Mutation_p.D3206N|DNAH9_uc002gnf.2_Missense_Mutation_p.D224N|DNAH9_uc010vvh.1_Missense_Mutation_p.D265N	NM_001372	NP_001363	Q9NYC9	DYH9_HUMAN	dynein, axonemal, heavy chain 9 isoform 2	3912	AAA 6 (By similarity).				cell projection organization|cellular component movement|microtubule-based movement|spermatogenesis	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	ATP binding|ATPase activity|microtubule motor activity			skin(10)|ovary(4)|breast(3)|central_nervous_system(2)|pancreas(1)	20		Breast(5;0.0122)|all_epithelial(5;0.131)		Colorectal(4;6.88e-05)|COAD - Colon adenocarcinoma(4;0.000813)|READ - Rectum adenocarcinoma(10;0.157)		CCCACTGAAGGATGTAGAAAG	0.498													10	19	---	---	---	---	PASS
MYOCD	93649	broad.mit.edu	37	17	12655844	12655844	+	Silent	SNP	G	A	A	rs150316964	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:12655844G>A	uc002gnn.2	+	10	1538	c.1239G>A	c.(1237-1239)CCG>CCA	p.P413P	MYOCD_uc002gno.2_Silent_p.P413P|MYOCD_uc002gnp.1_Silent_p.P317P|MYOCD_uc002gnq.2_Silent_p.P132P	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	413					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)		ACCCAGTGCCGAACTTTGGGG	0.552													16	41	---	---	---	---	PASS
MYOCD	93649	broad.mit.edu	37	17	12656034	12656034	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:12656034G>A	uc002gnn.2	+	10	1728	c.1429G>A	c.(1429-1431)GAT>AAT	p.D477N	MYOCD_uc002gno.2_Missense_Mutation_p.D477N|MYOCD_uc002gnp.1_Missense_Mutation_p.D381N|MYOCD_uc002gnq.2_Missense_Mutation_p.D196N	NM_153604	NP_705832	Q8IZQ8	MYCD_HUMAN	myocardin isoform 2	477	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)		CACCTTCAATGATGCCTCCCC	0.627													19	35	---	---	---	---	PASS
HS3ST3A1	9955	broad.mit.edu	37	17	13399983	13399983	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:13399983G>A	uc002gob.1	-	2	1550	c.752C>T	c.(751-753)TCG>TTG	p.S251L		NM_006042	NP_006033	Q9Y663	HS3SA_HUMAN	heparan sulfate D-glucosaminyl	251	PAPS and substrate.|Lumenal (Potential).					Golgi membrane|integral to membrane	[heparan sulfate]-glucosamine 3-sulfotransferase 3 activity			ovary(1)|central_nervous_system(1)	2		all_lung(20;0.114)		UCEC - Uterine corpus endometrioid carcinoma (92;0.101)		CGTGTAGTCCGAGATGGCCCT	0.637													5	25	---	---	---	---	PASS
NCOR1	9611	broad.mit.edu	37	17	16024534	16024534	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:16024534C>T	uc002gpo.2	-	16	1924	c.1684G>A	c.(1684-1686)GAG>AAG	p.E562K	NCOR1_uc002gpn.2_Missense_Mutation_p.E562K|NCOR1_uc002gpp.1_Missense_Mutation_p.E453K|NCOR1_uc002gpr.2_Missense_Mutation_p.E453K	NM_006311	NP_006302	O75376	NCOR1_HUMAN	nuclear receptor co-repressor 1	562					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)		TCTCTTTCCTCAGTTTCTTCT	0.488													17	36	---	---	---	---	PASS
ZNF624	57547	broad.mit.edu	37	17	16537184	16537184	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:16537184G>A	uc010cpi.1	-	5	451	c.368C>T	c.(367-369)CCC>CTC	p.P123L		NM_020787	NP_065838	Q9P2J8	ZN624_HUMAN	zinc finger protein 624	123	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			large_intestine(1)|ovary(1)	2				UCEC - Uterine corpus endometrioid carcinoma (92;0.0837)		ACCAGGATAGGGAATTCTTGA	0.403													3	21	---	---	---	---	PASS
TOP3A	7156	broad.mit.edu	37	17	18194300	18194300	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:18194300G>A	uc002gsx.1	-	12	1552	c.1323C>T	c.(1321-1323)TTC>TTT	p.F441F	TOP3A_uc010cpz.1_5'UTR|TOP3A_uc010vxr.1_5'UTR|TOP3A_uc002gsw.1_Intron|TOP3A_uc010vxs.1_Silent_p.F339F	NM_004618	NP_004609	Q13472	TOP3A_HUMAN	topoisomerase (DNA) III alpha	441					DNA topological change|meiosis	chromosome|PML body	ATP binding|DNA topoisomerase type I activity|protein binding|zinc ion binding			skin(3)	3						AGCAAGCCAGGAAATGGCGAA	0.537													14	41	---	---	---	---	PASS
SMCR8	140775	broad.mit.edu	37	17	18219614	18219614	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:18219614G>A	uc002gsy.3	+	1	1021	c.511G>A	c.(511-513)GAG>AAG	p.E171K		NM_144775	NP_658988	Q8TEV9	SMCR8_HUMAN	Smith-Magenis syndrome chromosome region,	171										central_nervous_system(1)	1						GCAGTTCCAGGAGCTTTCAGC	0.488													13	38	---	---	---	---	PASS
SHMT1	6470	broad.mit.edu	37	17	18257060	18257060	+	Silent	SNP	G	A	A	rs150099862		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:18257060G>A	uc002gta.2	-	3	358	c.168C>T	c.(166-168)TTC>TTT	p.F56F	SHMT1_uc002gtb.2_Silent_p.F56F|SHMT1_uc010cqb.2_Silent_p.F56F|SHMT1_uc010vxt.1_5'UTR|SHMT1_uc002gtd.1_Silent_p.F56F|SHMT1_uc010vxu.1_Silent_p.F56F	NM_004169	NP_004160	P34896	GLYC_HUMAN	serine hydroxymethyltransferase 1 (soluble)	56					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)	CTCGGCTGGCGAAATTCTCCG	0.468													59	55	---	---	---	---	PASS
FBXW10	10517	broad.mit.edu	37	17	18647829	18647829	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:18647829G>A	uc002guk.2	+	1	504	c.272G>A	c.(271-273)CGG>CAG	p.R91Q	FBXW10_uc002guj.2_Missense_Mutation_p.R91Q|FBXW10_uc002gul.2_Missense_Mutation_p.R91Q|FBXW10_uc010cqh.1_Missense_Mutation_p.R91Q	NM_031456	NP_113644	Q5XX13	FBW10_HUMAN	F-box and WD-40 domain protein 10	91										ovary(1)	1						AACAGGTCCCGGATCAACCTC	0.393													25	94	---	---	---	---	PASS
FBXW10	10517	broad.mit.edu	37	17	18654234	18654234	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:18654234C>T	uc002guk.2	+						FBXW10_uc002guj.2_Intron|FBXW10_uc002gul.2_Intron|FBXW10_uc010cqh.1_Intron	NM_031456	NP_113644	Q5XX13	FBW10_HUMAN	F-box and WD-40 domain protein 10											ovary(1)	1						tattttttgtctttttCCAGG	0.368													21	33	---	---	---	---	PASS
SLC47A1	55244	broad.mit.edu	37	17	19452969	19452969	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:19452969G>A	uc002gvy.1	+	5	563	c.477G>A	c.(475-477)ACG>ACA	p.T159T	SLC47A1_uc010vyy.1_RNA|SLC47A1_uc002gvx.2_Silent_p.T159T|SLC47A1_uc010vyz.1_Silent_p.T136T|SLC47A1_uc010cqp.1_Silent_p.T159T|SLC47A1_uc010cqq.1_Missense_Mutation_p.R11Q	NM_018242	NP_060712	Q96FL8	S47A1_HUMAN	solute carrier family 47, member 1	159	Helical; (Potential).					integral to membrane|plasma membrane	drug:hydrogen antiporter activity				0	all_cancers(12;2.49e-05)|all_epithelial(12;0.00263)|Hepatocellular(7;0.00345)					CCTATGTCACGATCTTCATTC	0.448													15	71	---	---	---	---	PASS
ULK2	9706	broad.mit.edu	37	17	19698953	19698953	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:19698953C>T	uc002gwm.3	-	20	2592	c.2083G>A	c.(2083-2085)GAA>AAA	p.E695K	ULK2_uc002gwn.2_Missense_Mutation_p.E695K	NM_001142610	NP_001136082	Q8IYT8	ULK2_HUMAN	unc-51-like kinase 2	695					signal transduction		ATP binding|protein binding|protein serine/threonine kinase activity			skin(2)|large_intestine(1)|stomach(1)	4	all_cancers(12;4.97e-05)|all_epithelial(12;0.00362)|Breast(13;0.186)					ATTGGTCGTTCTGTATTTAAA	0.308													7	96	---	---	---	---	PASS
MAP2K3	5606	broad.mit.edu	37	17	21208395	21208395	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21208395G>A	uc002gys.2	+	9	994	c.729G>A	c.(727-729)AAG>AAA	p.K243K	MAP2K3_uc002gyt.2_Silent_p.K214K|MAP2K3_uc002gyu.2_Silent_p.K214K	NM_145109	NP_659731	P46734	MP2K3_HUMAN	mitogen-activated protein kinase kinase 3	243	Protein kinase.				activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of transcription, DNA-dependent|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0				COAD - Colon adenocarcinoma(3;0.0131)|Colorectal(15;0.0553)		TGAACCAGAAGGGCTACAATG	0.637													22	156	---	---	---	---	PASS
MAP2K3	5606	broad.mit.edu	37	17	21217475	21217475	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21217475C>T	uc002gys.2	+	12	1242	c.977C>T	c.(976-978)ACC>ATC	p.T326I	MAP2K3_uc002gyt.2_Missense_Mutation_p.T297I|MAP2K3_uc002gyu.2_Missense_Mutation_p.T297I	NM_145109	NP_659731	P46734	MP2K3_HUMAN	mitogen-activated protein kinase kinase 3	326					activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of transcription, DNA-dependent|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0				COAD - Colon adenocarcinoma(3;0.0131)|Colorectal(15;0.0553)		CCCTTCTTCACCTTGCACAAA	0.612													45	332	---	---	---	---	PASS
MAP2K3	5606	broad.mit.edu	37	17	21217476	21217476	+	Silent	SNP	C	T	T	rs116715468	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21217476C>T	uc002gys.2	+	12	1243	c.978C>T	c.(976-978)ACC>ACT	p.T326T	MAP2K3_uc002gyt.2_Silent_p.T297T|MAP2K3_uc002gyu.2_Silent_p.T297T	NM_145109	NP_659731	P46734	MP2K3_HUMAN	mitogen-activated protein kinase kinase 3	326					activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of transcription, DNA-dependent|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0				COAD - Colon adenocarcinoma(3;0.0131)|Colorectal(15;0.0553)		CCTTCTTCACCTTGCACAAAA	0.617													43	337	---	---	---	---	PASS
KSR1	8844	broad.mit.edu	37	17	25877650	25877650	+	5'UTR	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:25877650C>A	uc010crg.2	+	3					KSR1_uc002gzj.1_RNA	NM_014238	NP_055053	Q8IVT5	KSR1_HUMAN	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)		GCGTGGCTCCCGGTGAGAGGA	0.562													4	86	---	---	---	---	PASS
NOS2	4843	broad.mit.edu	37	17	26107882	26107882	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:26107882G>A	uc002gzu.2	-	9	1179	c.915C>T	c.(913-915)GTC>GTT	p.V305V	NOS2_uc010crh.1_Silent_p.V305V|NOS2_uc010wab.1_Silent_p.V305V	NM_000625	NP_000616	P35228	NOS2_HUMAN	nitric oxide synthase 2A	305					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)	GGACCAGGGGGACCACATCGA	0.607													5	23	---	---	---	---	PASS
SLC46A1	113235	broad.mit.edu	37	17	26731817	26731817	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:26731817C>T	uc002hbf.1	-	2	994	c.898G>A	c.(898-900)GAC>AAC	p.D300N	SLC46A1_uc002hbg.1_Missense_Mutation_p.D300N|SLC46A1_uc010wak.1_Missense_Mutation_p.D300N	NM_080669	NP_542400	Q96NT5	PCFT_HUMAN	proton-coupled folate transporter	300					cellular iron ion homeostasis|folic acid metabolic process	apical plasma membrane|cytoplasm|integral to membrane	folic acid binding|folic acid transporter activity|heme transporter activity				0	all_lung(13;0.000533)|Lung NSC(42;0.00171)			UCEC - Uterine corpus endometrioid carcinoma (53;0.153)	Folic Acid(DB00158)	AGTTTGGAGTCCCAGCAGAGG	0.557													20	39	---	---	---	---	PASS
SLC46A1	113235	broad.mit.edu	37	17	26731818	26731818	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:26731818C>T	uc002hbf.1	-	2	993	c.897G>A	c.(895-897)TGG>TGA	p.W299*	SLC46A1_uc002hbg.1_Nonsense_Mutation_p.W299*|SLC46A1_uc010wak.1_Nonsense_Mutation_p.W299*	NM_080669	NP_542400	Q96NT5	PCFT_HUMAN	proton-coupled folate transporter	299					cellular iron ion homeostasis|folic acid metabolic process	apical plasma membrane|cytoplasm|integral to membrane	folic acid binding|folic acid transporter activity|heme transporter activity				0	all_lung(13;0.000533)|Lung NSC(42;0.00171)			UCEC - Uterine corpus endometrioid carcinoma (53;0.153)	Folic Acid(DB00158)	GTTTGGAGTCCCAGCAGAGGG	0.552													20	39	---	---	---	---	PASS
ALDOC	230	broad.mit.edu	37	17	26902293	26902293	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:26902293G>A	uc002hbp.2	-	3	317	c.172C>T	c.(172-174)CTG>TTG	p.L58L	ALDOC_uc010cro.2_Silent_p.L58L	NM_005165	NP_005156	P09972	ALDOC_HUMAN	fructose-bisphosphate aldolase C	58					fructose 1,6-bisphosphate metabolic process|gluconeogenesis|glycolysis	cytosol	cytoskeletal protein binding|fructose-bisphosphate aldolase activity			ovary(1)	1	Lung NSC(42;0.00431)					TGGCGGTACAGCCGGCGGTTC	0.537											OREG0024278	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	19	25	---	---	---	---	PASS
SUPT6H	6830	broad.mit.edu	37	17	27016513	27016513	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:27016513C>T	uc002hby.2	+	25	3366	c.3276C>T	c.(3274-3276)ATC>ATT	p.I1092I	SUPT6H_uc010crt.2_Silent_p.I1092I|SUPT6H_uc002hbz.1_Silent_p.I24I	NM_003170	NP_003161	Q7KZ85	SPT6H_HUMAN	suppressor of Ty 6 homolog	1092					chromatin remodeling|regulation of transcription elongation, DNA-dependent|regulation of transcription from RNA polymerase II promoter	nucleus	hydrolase activity, acting on ester bonds|RNA binding|sequence-specific DNA binding transcription factor activity			ovary(2)|skin(1)	3	Lung NSC(42;0.00431)					TTGAAGAAATCTTGGAAAACC	0.542													18	19	---	---	---	---	PASS
SEZ6	124925	broad.mit.edu	37	17	27291092	27291092	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:27291092C>T	uc002hdp.2	-	5	1322	c.1128G>A	c.(1126-1128)GGG>GGA	p.G376G	SEZ6_uc002hdm.2_RNA|SEZ6_uc010cry.1_Silent_p.G376G|SEZ6_uc002hdq.1_Silent_p.G251G|SEZ6_uc010crz.1_Silent_p.G376G	NM_178860	NP_849191	Q53EL9	SEZ6_HUMAN	seizure related 6 homolog isoform 1	376	Sushi 1.|Extracellular (Potential).					integral to membrane|plasma membrane				large_intestine(1)|central_nervous_system(1)	2	Lung NSC(42;0.0137)		Epithelial(11;4.73e-06)|all cancers(11;2.91e-05)|BRCA - Breast invasive adenocarcinoma(11;8.06e-05)|OV - Ovarian serous cystadenocarcinoma(11;0.111)			GGGCACTACCCCCTGGGTGGA	0.587													6	7	---	---	---	---	PASS
PIPOX	51268	broad.mit.edu	37	17	27371896	27371896	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:27371896G>A	uc002hdr.1	+	2	460	c.134G>A	c.(133-135)CGA>CAA	p.R45Q		NM_016518	NP_057602	Q9P0Z9	SOX_HUMAN	pipecolic acid oxidase	45					tetrahydrofolate metabolic process	peroxisome	L-pipecolate oxidase activity|sarcosine oxidase activity				0	Lung NSC(42;0.015)		Epithelial(11;9.87e-06)|BRCA - Breast invasive adenocarcinoma(11;3.92e-05)|all cancers(11;5.59e-05)|Colorectal(6;0.0102)|COAD - Colon adenocarcinoma(6;0.031)		Glycine(DB00145)	CCACACTCCCGAGGAAGCTCC	0.502													18	39	---	---	---	---	PASS
TAOK1	57551	broad.mit.edu	37	17	27822697	27822697	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:27822697C>T	uc002hdz.1	+	11	1145	c.951C>T	c.(949-951)TTC>TTT	p.F317F	TAOK1_uc010wbe.1_Silent_p.F317F|TAOK1_uc010wbf.1_Silent_p.F317F|TAOK1_uc002heb.1_Silent_p.F143F	NM_020791	NP_065842	Q7L7X3	TAOK1_HUMAN	TAO kinase 1	317					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)			AACTCCTTTTCCAGGAGGCAC	0.403													23	30	---	---	---	---	PASS
TAOK1	57551	broad.mit.edu	37	17	27822698	27822698	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:27822698C>T	uc002hdz.1	+	11	1146	c.952C>T	c.(952-954)CAG>TAG	p.Q318*	TAOK1_uc010wbe.1_Nonsense_Mutation_p.Q318*|TAOK1_uc010wbf.1_Nonsense_Mutation_p.Q318*|TAOK1_uc002heb.1_Nonsense_Mutation_p.Q144*	NM_020791	NP_065842	Q7L7X3	TAOK1_HUMAN	TAO kinase 1	318					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)			ACTCCTTTTCCAGGAGGCACA	0.408													24	29	---	---	---	---	PASS
NF1	4763	broad.mit.edu	37	17	29483114	29483114	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:29483114C>T	uc002hgg.2	+	2	507	c.174C>T	c.(172-174)CTC>CTT	p.L58L	NF1_uc002hge.1_Silent_p.L58L|NF1_uc002hgf.1_Silent_p.L58L|NF1_uc002hgh.2_Silent_p.L58L|NF1_uc010csn.1_5'UTR	NM_001042492	NP_001035957	P21359	NF1_HUMAN	neurofibromin isoform 1	58					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)		TAAGCGGCCTCACTACTATTT	0.338			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)			10	35	---	---	---	---	PASS
ZNF207	7756	broad.mit.edu	37	17	30678826	30678826	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:30678826T>G	uc002hhh.3	+	2	211	c.63T>G	c.(61-63)GAT>GAG	p.D21E	ZNF207_uc002hhj.3_Missense_Mutation_p.D21E|ZNF207_uc002hhi.3_Missense_Mutation_p.D21E|ZNF207_uc010csz.2_Missense_Mutation_p.D24E|ZNF207_uc002hhk.1_Missense_Mutation_p.D21E	NM_003457	NP_003448	O43670	ZN207_HUMAN	zinc finger protein 207 isoform a	21	C2H2-type 1.					nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Breast(31;0.116)|Ovarian(249;0.182)	BRCA - Breast invasive adenocarcinoma(9;0.239)			GAGATTTTGATGATGAGAAGA	0.333													3	24	---	---	---	---	PASS
SPACA3	124912	broad.mit.edu	37	17	31324761	31324761	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:31324761G>A	uc002hhs.1	+	5	688	c.613G>A	c.(613-615)GAC>AAC	p.D205N	SPACA3_uc010cte.1_RNA	NM_173847	NP_776246	Q8IXA5	SACA3_HUMAN	sperm acrosome associated 3	205	Extracellular (Potential).				cell wall macromolecule catabolic process|defense response to Gram-positive bacterium|monocyte activation|peptidoglycan catabolic process|positive regulation of macrophage activation|positive regulation of phagocytosis|response to virus	acrosomal membrane|extracellular region|integral to membrane|lysosome	bacterial cell surface binding|lysozyme activity|protein binding			ovary(2)	2			BRCA - Breast invasive adenocarcinoma(9;0.193)			CCAGGGAAAAGACCTCACTGA	0.547													4	43	---	---	---	---	PASS
ACCN1	40	broad.mit.edu	37	17	31355373	31355373	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:31355373G>A	uc002hhu.2	-	4	1146	c.872C>T	c.(871-873)TCC>TTC	p.S291F	ACCN1_uc002hht.2_Missense_Mutation_p.S342F	NM_001094	NP_001085	Q16515	ACCN1_HUMAN	amiloride-sensitive cation channel 1, neuronal	291	Extracellular (By similarity).				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)	CATCTCTGAGGATCGGCACTC	0.542													18	22	---	---	---	---	PASS
ACCN1	40	broad.mit.edu	37	17	32483157	32483157	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:32483157G>A	uc002hhu.2	-	1	669	c.395C>T	c.(394-396)TCC>TTC	p.S132F		NM_001094	NP_001085	Q16515	ACCN1_HUMAN	amiloride-sensitive cation channel 1, neuronal	132	Extracellular (By similarity).				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)	CTCCAGCACGGAGGGGTCAGC	0.607													13	40	---	---	---	---	PASS
AMAC1	146861	broad.mit.edu	37	17	33521009	33521009	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:33521009G>A	uc002hjd.2	-	1	404	c.318C>T	c.(316-318)TTC>TTT	p.F106F		NM_152462	NP_689675	Q8N808	AMAC1_HUMAN	acyl-malonyl condensing enzyme 1	106	DUF6 1.|Helical; (Potential).					integral to membrane					0				BRCA - Breast invasive adenocarcinoma(366;0.0917)		GCAGGGCACAGAAGAAGGCCC	0.587													34	91	---	---	---	---	PASS
MMP28	79148	broad.mit.edu	37	17	34095373	34095373	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:34095373G>A	uc002hjy.1	-	8	1135	c.876C>T	c.(874-876)GCC>GCT	p.A292A	MMP28_uc002hjw.1_RNA|MMP28_uc002hjz.1_RNA	NM_024302	NP_077278	Q9H239	MMP28_HUMAN	matrix metalloproteinase 28 isoform 1	292					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)		GGAGCTGGACGGCCACTGAGC	0.552													12	22	---	---	---	---	PASS
MMP28	79148	broad.mit.edu	37	17	34105923	34105923	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:34105923T>G	uc002hjy.1	-	3	607	c.348A>C	c.(346-348)AAA>AAC	p.K116N	MMP28_uc002hjw.1_RNA|MMP28_uc002hjz.1_RNA|MMP28_uc002hka.2_Missense_Mutation_p.K116N	NM_024302	NP_077278	Q9H239	MMP28_HUMAN	matrix metalloproteinase 28 isoform 1	116					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)		TACGCCTCATTTTGGTCCGGT	0.512													31	35	---	---	---	---	PASS
C17orf66	256957	broad.mit.edu	37	17	34190509	34190509	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:34190509G>A	uc002hke.1	-	7	771	c.622C>T	c.(622-624)CTG>TTG	p.L208L	C17orf66_uc010wck.1_RNA|C17orf66_uc010wcl.1_Silent_p.L168L|C17orf66_uc010wcm.1_Silent_p.L174L	NM_152781	NP_689994	A2RTY3	CQ066_HUMAN	hypothetical protein LOC256957	208							binding			breast(2)|skin(1)	3		Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0184)		TACTCACCCAGGATGGCCAGG	0.468													11	23	---	---	---	---	PASS
AATF	26574	broad.mit.edu	37	17	35376297	35376297	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:35376297C>T	uc002hni.2	+						AATF_uc002hnj.2_Intron	NM_012138	NP_036270	Q9NY61	AATF_HUMAN	apoptosis antagonizing transcription factor						anti-apoptosis|apoptosis|induction of apoptosis by extracellular signals|negative regulation of superoxide anion generation|nerve growth factor receptor signaling pathway|positive regulation of transcription from RNA polymerase II promoter|response to DNA damage stimulus	centrosome|focal adhesion|nucleolus	leucine zipper domain binding|sequence-specific DNA binding transcription factor activity				0		Breast(25;0.00607)				TTTCCTTTTTCCCCTAGCTCC	0.423													27	32	---	---	---	---	PASS
TBC1D3	729873	broad.mit.edu	37	17	36288238	36288238	+	Silent	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:36288238C>A	uc002hoo.2	+	6	481	c.324C>A	c.(322-324)GGC>GGA	p.G108G	TBC1D3_uc002hop.2_RNA|TBC1D3_uc010wdj.1_Silent_p.G28G|TBC1D3_uc010cvf.1_Silent_p.G108G|TBC1D3_uc002hoq.2_Silent_p.G108G|TBC1D3_uc010wdk.1_Silent_p.G169G|uc002hpl.2_5'Flank|uc002hor.2_5'Flank	NM_032258	NP_115634	Q8IZP1	TBC3A_HUMAN	TBC1 domain family, member 3F	108	Rab-GAP TBC.					intracellular	Rab GTPase activator activity				0	Breast(7;2.97e-12)	Breast(25;0.102)|Ovarian(249;0.17)		UCEC - Uterine corpus endometrioid carcinoma (308;0.0182)		ACATCCGGGGCCCGATGTGGT	0.562													43	189	---	---	---	---	PASS
GPR179	440435	broad.mit.edu	37	17	36484158	36484158	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:36484158C>T	uc002hpz.2	-	11	5315	c.5294G>A	c.(5293-5295)GGG>GAG	p.G1765E		NM_001004334	NP_001004334	Q6PRD1	GP179_HUMAN	GPR158-like 1 precursor	1765	Cytoplasmic (Potential).					integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3	Breast(7;2.97e-12)	Breast(25;0.0101)|Ovarian(249;0.15)				ACCCACACTCCCCCAGGGACA	0.577													6	28	---	---	---	---	PASS
GPR179	440435	broad.mit.edu	37	17	36489929	36489929	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:36489929G>A	uc002hpz.2	-							NM_001004334	NP_001004334	Q6PRD1	GP179_HUMAN	GPR158-like 1 precursor							integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3	Breast(7;2.97e-12)	Breast(25;0.0101)|Ovarian(249;0.15)				AACCTGGGGCGGGATAGGGGC	0.592											OREG0024354	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	17	---	---	---	---	PASS
GPR179	440435	broad.mit.edu	37	17	36492039	36492039	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:36492039G>A	uc002hpz.2	-							NM_001004334	NP_001004334	Q6PRD1	GP179_HUMAN	GPR158-like 1 precursor							integral to membrane|plasma membrane	G-protein coupled receptor activity			ovary(3)	3	Breast(7;2.97e-12)	Breast(25;0.0101)|Ovarian(249;0.15)				TGTGAAGCAAGGAGAGAGGCA	0.532													12	44	---	---	---	---	PASS
PCGF2	7703	broad.mit.edu	37	17	36894858	36894858	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:36894858G>A	uc002hqp.1	-						PCGF2_uc002hqn.1_Intron|PCGF2_uc002hqo.1_Intron|PCGF2_uc010cvo.1_Intron|PCGF2_uc002hqq.1_Intron	NM_007144	NP_009075	P35227	PCGF2_HUMAN	ring finger protein 110						negative regulation of transcription from RNA polymerase II promoter	PcG protein complex	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			central_nervous_system(1)|skin(1)	2	Breast(7;9.07e-22)					CCTGGGGACGGAGAAAGAATG	0.502													20	24	---	---	---	---	PASS
PLXDC1	57125	broad.mit.edu	37	17	37296090	37296090	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:37296090G>A	uc002hrg.2	-						PLXDC1_uc002hrh.2_Intron|PLXDC1_uc002hri.2_Intron|PLXDC1_uc002hrj.1_Intron|PLXDC1_uc002hrk.1_Intron	NM_020405	NP_065138	Q8IUK5	PXDC1_HUMAN	plexin domain containing 1 precursor						angiogenesis	cytoplasm|extracellular region|integral to membrane|tight junction				ovary(1)|kidney(1)|skin(1)	3						CGTGACCTGGGAGAAGGGGAC	0.617													4	18	---	---	---	---	PASS
CDK12	51755	broad.mit.edu	37	17	37687305	37687305	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:37687305C>T	uc010cvv.2	+	14	4795	c.4209C>T	c.(4207-4209)CTC>CTT	p.L1403L	CDK12_uc002hrw.3_Silent_p.L1394L	NM_016507	NP_057591	Q9NYV4	CDK12_HUMAN	Cdc2-related kinase, arginine/serine-rich	1403					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						ACCAGGACCTCCGTTTTGCCA	0.572										TCGA Ovarian(9;0.13)			16	28	---	---	---	---	PASS
STARD3	10948	broad.mit.edu	37	17	37814215	37814215	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:37814215C>T	uc002hsd.2	+						STARD3_uc010weg.1_Intron|STARD3_uc010weh.1_Intron|STARD3_uc002hse.2_Intron|STARD3_uc010wei.1_Intron|STARD3_uc002hsf.2_Intron|STARD3_uc002hsg.2_5'Flank	NM_006804	NP_006795	Q14849	STAR3_HUMAN	StAR-related lipid transfer (START) domain						cholesterol metabolic process|mitochondrial transport|steroid biosynthetic process	integral to membrane|late endosome membrane	cholesterol binding|cholesterol transporter activity				0	Lung NSC(9;1.15e-09)|all_lung(9;6.24e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|BRCA - Breast invasive adenocarcinoma(8;1.04e-44)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			CTCCCTCCCTCCCCTGGGCAG	0.622													7	11	---	---	---	---	PASS
STARD3	10948	broad.mit.edu	37	17	37814216	37814216	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:37814216C>T	uc002hsd.2	+						STARD3_uc010weg.1_Intron|STARD3_uc010weh.1_Intron|STARD3_uc002hse.2_Intron|STARD3_uc010wei.1_Intron|STARD3_uc002hsf.2_Intron|STARD3_uc002hsg.2_5'Flank	NM_006804	NP_006795	Q14849	STAR3_HUMAN	StAR-related lipid transfer (START) domain						cholesterol metabolic process|mitochondrial transport|steroid biosynthetic process	integral to membrane|late endosome membrane	cholesterol binding|cholesterol transporter activity				0	Lung NSC(9;1.15e-09)|all_lung(9;6.24e-09)|Colorectal(19;0.000442)|Esophageal squamous(10;0.052)		UCEC - Uterine corpus endometrioid carcinoma (11;0.000126)|BRCA - Breast invasive adenocarcinoma(8;1.04e-44)|Lung(15;0.00193)|LUAD - Lung adenocarcinoma(14;0.0664)|LUSC - Lung squamous cell carcinoma(15;0.171)			TCCCTCCCTCCCCTGGGCAGG	0.622													6	9	---	---	---	---	PASS
MSL1	339287	broad.mit.edu	37	17	38285676	38285676	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:38285676C>T	uc002hub.2	+	3	587	c.568C>T	c.(568-570)CGG>TGG	p.R190W	MSL1_uc002hua.3_Missense_Mutation_p.R128W|MSL1_uc002huc.2_Missense_Mutation_p.R128W|MSL1_uc002hud.2_5'Flank	NM_001012241	NP_001012241	Q68DK7	MSL1_HUMAN	hampin	391					histone H4-K16 acetylation	MSL complex					0						AGAAAAGCCCCGGTCTTCAGT	0.493													21	56	---	---	---	---	PASS
CASC3	22794	broad.mit.edu	37	17	38318975	38318975	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:38318975C>T	uc010cwt.1	+						CASC3_uc010cws.1_Intron|CASC3_uc002hue.2_Intron	NM_007359	NP_031385	O15234	CASC3_HUMAN	metastatic lymph node 51						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						TCATTTTATCCAGACCCAAGG	0.517													10	17	---	---	---	---	PASS
RAPGEFL1	51195	broad.mit.edu	37	17	38348886	38348886	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:38348886G>A	uc010cwu.1	+	12	1557	c.1067G>A	c.(1066-1068)CGA>CAA	p.R356Q	RAPGEFL1_uc010wfd.1_Missense_Mutation_p.R292Q	NM_016339	NP_057423	Q9UHV5	RPGFL_HUMAN	Rap guanine nucleotide exchange factor	562	Ras-GEF.				G-protein coupled receptor protein signaling pathway|nervous system development|small GTPase mediated signal transduction	intracellular|membrane fraction	guanyl-nucleotide exchange factor activity			ovary(1)|central_nervous_system(1)|skin(1)	3						AAAAGCTACCGAGAAGTGATC	0.532													106	179	---	---	---	---	PASS
WIPF2	147179	broad.mit.edu	37	17	38421050	38421050	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:38421050C>T	uc002hug.1	+	5	862	c.622C>T	c.(622-624)CCC>TCC	p.P208S	WIPF2_uc002huh.1_Missense_Mutation_p.P58S|WIPF2_uc010cww.1_Missense_Mutation_p.P58S|WIPF2_uc002hui.1_Missense_Mutation_p.P208S|WIPF2_uc010cwx.1_Intron|WIPF2_uc010cwy.1_Missense_Mutation_p.P208S	NM_133264	NP_573571	Q8TF74	WIPF2_HUMAN	WIRE protein	208						cytoplasm|cytoskeleton	actin binding			upper_aerodigestive_tract(1)|ovary(1)|pancreas(1)	3						CAGAGAGAAACCCTTGCCACC	0.637										HNSCC(43;0.11)			23	37	---	---	---	---	PASS
KRT23	25984	broad.mit.edu	37	17	39092725	39092725	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:39092725G>A	uc002hvm.1	-	2	720	c.131C>T	c.(130-132)TCC>TTC	p.S44F	KRT23_uc010wfl.1_Intron|KRT23_uc010cxf.1_Intron|KRT23_uc010cxg.2_Missense_Mutation_p.S44F|KRT23_uc002hvn.1_Missense_Mutation_p.S44F	NM_015515	NP_056330	Q9C075	K1C23_HUMAN	keratin 23	44	Head.					intermediate filament	structural molecule activity			ovary(1)	1		Breast(137;0.000301)|Ovarian(249;0.15)				GAAGGACAGGGAGATGCGGGC	0.701													21	18	---	---	---	---	PASS
KRT15	3866	broad.mit.edu	37	17	39672489	39672489	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:39672489G>A	uc002hwy.2	-	4	958	c.767C>T	c.(766-768)GCC>GTC	p.A256V	KRT15_uc002hwz.2_Missense_Mutation_p.A158V|KRT15_uc002hxa.2_Missense_Mutation_p.A91V|KRT15_uc002hxb.1_Missense_Mutation_p.A91V	NM_002275	NP_002266	P19012	K1C15_HUMAN	keratin 15	256	Rod.|Linker 12.				epidermis development	intermediate filament	protein binding|structural constituent of cytoskeleton				0		Breast(137;0.000286)				GACCTGGCCGGCCAGCTGGCT	0.607													71	103	---	---	---	---	PASS
KRT14	3861	broad.mit.edu	37	17	39739615	39739615	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:39739615C>T	uc002hxf.1	-	6	1207	c.1146G>A	c.(1144-1146)GAG>GAA	p.E382E	JUP_uc010wfs.1_Intron|KRT14_uc010cxp.1_Intron	NM_000526	NP_000517	P02533	K1C14_HUMAN	keratin 14	382	Rod.|Coil 2.				epidermis development|hemidesmosome assembly|intermediate filament bundle assembly	cytosol|keratin filament|mitochondrion|nucleus	protein binding|structural constituent of cytoskeleton			ovary(1)	1		Breast(137;0.000307)				GGGCCAGCTGCTCCTCCACGC	0.607													8	33	---	---	---	---	PASS
JUP	3728	broad.mit.edu	37	17	39778018	39778018	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:39778018G>A	uc010wfs.1	-						KRT17_uc002hxh.2_Intron	NM_021991	NP_068831	P14923	PLAK_HUMAN	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)		TATGGAAAAAGGGGATGTGGA	0.597													10	19	---	---	---	---	PASS
HAP1	9001	broad.mit.edu	37	17	39881284	39881284	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:39881284G>A	uc002hxm.1	-	12	1697	c.1685C>T	c.(1684-1686)CCC>CTC	p.P562L	JUP_uc010wfs.1_Intron|HAP1_uc002hxn.1_Missense_Mutation_p.P510L|HAP1_uc002hxo.1_Missense_Mutation_p.P493L|HAP1_uc002hxp.1_Missense_Mutation_p.P485L	NM_177977	NP_817084	P54257	HAP1_HUMAN	huntingtin-associated protein 1 isoform 2	562	Glu-rich.				brain development|protein localization|synaptic transmission	actin cytoskeleton	protein binding			ovary(2)	2		Breast(137;0.000162)	BRCA - Breast invasive adenocarcinoma(4;0.0677)			CTCCTCCTGGGGCACGAACTC	0.637													45	157	---	---	---	---	PASS
NKIRAS2	28511	broad.mit.edu	37	17	40174625	40174625	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:40174625G>A	uc002hyq.2	+	3	368	c.303G>A	c.(301-303)AAG>AAA	p.K101K	NKIRAS2_uc010wgd.1_Missense_Mutation_p.R69K|NKIRAS2_uc002hyr.2_Silent_p.K101K|NKIRAS2_uc002hys.2_Silent_p.K101K|NKIRAS2_uc010wge.1_Intron|NKIRAS2_uc002hyt.2_Silent_p.K101K	NM_001001349	NP_001001349	Q9NYR9	KBRS2_HUMAN	NFKB inhibitor interacting Ras-like 2 isoform a	101	Small GTPase-like.				I-kappaB kinase/NF-kappaB cascade|small GTPase mediated signal transduction	cytoplasm	GTP binding|GTPase activity	p.K101M(1)		ovary(1)	1		all_cancers(22;1.1e-05)|Breast(137;0.000143)|all_epithelial(22;0.000319)				AGCTGCTCAAGAAGGAGATTG	0.552													13	26	---	---	---	---	PASS
STAT5A	6776	broad.mit.edu	37	17	40453402	40453402	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:40453402C>T	uc002hzj.1	+	10	1741	c.1099C>T	c.(1099-1101)CCC>TCC	p.P367S	STAT5A_uc010cya.1_Missense_Mutation_p.P367S|STAT5A_uc010cyb.1_Missense_Mutation_p.P367S|STAT5A_uc010cyc.1_Missense_Mutation_p.P337S	NM_003152	NP_003143	P42229	STA5A_HUMAN	signal transducer and activator of transcription	367					2-oxoglutarate metabolic process|allantoin metabolic process|citrate metabolic process|creatine metabolic process|creatinine metabolic process|fatty acid metabolic process|isoleucine metabolic process|oxaloacetate metabolic process|succinate metabolic process|taurine metabolic process|valine metabolic process	cytosol|nucleoplasm	calcium ion binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			lung(1)	1		all_cancers(22;1.56e-06)|all_epithelial(22;3.17e-05)|Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.128)		CATGAATCCCCCCCAGGTGAA	0.567													17	38	---	---	---	---	PASS
COASY	80347	broad.mit.edu	37	17	40714916	40714916	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:40714916C>T	uc002hzz.2	+	2	433	c.276C>T	c.(274-276)ACC>ACT	p.T92T	COASY_uc010cyj.2_Silent_p.T121T|COASY_uc002iab.2_Intron|COASY_uc002iad.2_Silent_p.T92T|COASY_uc002iac.2_Silent_p.T92T|COASY_uc002iae.2_5'Flank	NM_001042529	NP_001035994	Q13057	COASY_HUMAN	coenzyme A synthase isoform a	92					coenzyme A biosynthetic process|pantothenate metabolic process	mitochondrial outer membrane	ATP binding|dephospho-CoA kinase activity|pantetheine-phosphate adenylyltransferase activity				0		all_cancers(22;1.06e-05)|Breast(137;0.000153)|all_epithelial(22;0.000344)		BRCA - Breast invasive adenocarcinoma(366;0.13)		ATATCCGAACCAAGAGCACCT	0.557													54	76	---	---	---	---	PASS
CNTD1	124817	broad.mit.edu	37	17	40956419	40956419	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:40956419G>A	uc002ibm.3	+						CNTD1_uc010wha.1_Intron	NM_173478	NP_775749	Q8N815	CNTD1_HUMAN	cyclin N-terminal domain containing 1											central_nervous_system(1)	1		Breast(137;0.00104)		BRCA - Breast invasive adenocarcinoma(366;0.0749)		AACAAAGTAAGGAGCTGGGGT	0.463													25	38	---	---	---	---	PASS
AOC2	314	broad.mit.edu	37	17	40996818	40996818	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:40996818C>T	uc002ibu.2	+	1	210	c.175C>T	c.(175-177)CTG>TTG	p.L59L	AOC2_uc002ibt.2_Silent_p.L59L	NM_009590	NP_033720	O75106	AOC2_HUMAN	amine oxidase, copper containing 2 isoform b	59					catecholamine metabolic process|visual perception	cytoplasm|plasma membrane	aliphatic-amine oxidase activity|aminoacetone:oxygen oxidoreductase(deaminating) activity|copper ion binding|electron carrier activity|phenethylamine:oxygen oxidoreductase (deaminating) activity|primary amine oxidase activity|quinone binding|tryptamine:oxygen oxidoreductase (deaminating) activity			ovary(2)	2		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.156)		GTTTGCAGACCTGAGCCGAGA	0.662													45	103	---	---	---	---	PASS
G6PC	2538	broad.mit.edu	37	17	41053082	41053082	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:41053082G>T	uc002icb.1	+	1	268	c.189G>T	c.(187-189)TGG>TGT	p.W63C	LOC388387_uc002ibz.2_5'Flank|LOC388387_uc002iby.2_5'Flank|LOC388387_uc002ica.2_5'Flank|LOC388387_uc010whe.1_5'Flank|G6PC_uc010whf.1_Missense_Mutation_p.W65C	NM_000151	NP_000142	P35575	G6PC_HUMAN	glucose-6-phosphatase, catalytic subunit	63	Helical; (Potential).		W -> R (in GSD1A).		gluconeogenesis|glucose homeostasis|transmembrane transport	integral to endoplasmic reticulum membrane	glucose-6-phosphatase activity|phosphate binding			ovary(1)|breast(1)|kidney(1)|skin(1)	4		Breast(137;0.000143)		BRCA - Breast invasive adenocarcinoma(366;0.113)		AACTCCTTTGGGTAGCTGTGA	0.493									Glycogen_Storage_Disease_type_Ia				7	73	---	---	---	---	PASS
RUNDC1	146923	broad.mit.edu	37	17	41142464	41142464	+	Intron	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:41142464T>C	uc002ici.1	+						RUNDC1_uc010whi.1_Intron	NM_173079	NP_775102	Q96C34	RUND1_HUMAN	RUN domain containing 1												0		Breast(137;0.00499)		BRCA - Breast invasive adenocarcinoma(366;0.161)		GTAAGTGCAGTTtccagaaca	0.279													13	12	---	---	---	---	PASS
BRCA1	672	broad.mit.edu	37	17	41245974	41245974	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:41245974A>G	uc002icq.2	-	10	1806	c.1574T>C	c.(1573-1575)GTT>GCT	p.V525A	BRCA1_uc010whp.1_Intron|BRCA1_uc010whl.1_Intron|BRCA1_uc010whm.1_Intron|BRCA1_uc002icp.3_Missense_Mutation_p.V454A|BRCA1_uc002icu.2_Intron|BRCA1_uc010cyx.2_Missense_Mutation_p.V478A|BRCA1_uc002ict.2_Missense_Mutation_p.V525A|BRCA1_uc010whn.1_Intron|BRCA1_uc010who.1_Intron|BRCA1_uc010whq.1_Intron|BRCA1_uc002idc.1_Intron|BRCA1_uc010whr.1_Intron|BRCA1_uc002idd.2_Missense_Mutation_p.V525A|BRCA1_uc002ide.1_Missense_Mutation_p.V356A|BRCA1_uc010cyy.1_Missense_Mutation_p.V525A|BRCA1_uc010whs.1_Missense_Mutation_p.V525A|BRCA1_uc010cyz.2_Missense_Mutation_p.V478A|BRCA1_uc010cza.2_Missense_Mutation_p.V499A|BRCA1_uc010wht.1_Missense_Mutation_p.V229A	NM_007294	NP_009225	P38398	BRCA1_HUMAN	breast cancer 1, early onset isoform 1	525					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)		AGTCTTTTGAACTGCCAAATC	0.368			D|Mis|N|F|S		ovarian	breast|ovarian		Homologous_recombination	Hereditary_Breast-Ovarian_Cancer_BRCA1_type	TCGA Ovarian(2;0.000030)			4	22	---	---	---	---	PASS
CD300LG	146894	broad.mit.edu	37	17	41939188	41939188	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:41939188C>T	uc002iem.2	+	7	949	c.908C>T	c.(907-909)CCT>CTT	p.P303L		NM_145273	NP_660316	Q6UXG3	CLM9_HUMAN	CD300 molecule-like family member g precursor	303	Cytoplasmic (Potential).					apical plasma membrane|basolateral plasma membrane|integral to membrane|multivesicular body membrane	receptor activity				0		Breast(137;0.0199)		BRCA - Breast invasive adenocarcinoma(366;0.115)		AAGGAAGCCCCTTCCCAGGCC	0.602													4	3	---	---	---	---	PASS
C17orf53	78995	broad.mit.edu	37	17	42228319	42228319	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:42228319C>T	uc002ifi.1	+						C17orf53_uc010czq.1_Intron|C17orf53_uc002ifj.1_Intron|C17orf53_uc002ifk.1_Intron	NM_024032	NP_076937	Q8N3J3	CQ053_HUMAN	hypothetical protein LOC78995												0		Breast(137;0.0364)|Prostate(33;0.0376)		BRCA - Breast invasive adenocarcinoma(366;0.114)		CTCCTTCCCTCCCCTCTTAGC	0.463													3	16	---	---	---	---	PASS
DBF4B	80174	broad.mit.edu	37	17	42818751	42818751	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:42818751C>T	uc002ihf.2	+	10	974	c.761C>T	c.(760-762)TCT>TTT	p.S254F	DBF4B_uc010wjb.1_Intron|DBF4B_uc002ihe.2_Missense_Mutation_p.S68F|DBF4B_uc010wjc.1_Missense_Mutation_p.S238F	NM_145663	NP_663696	Q8NFT6	DBF4B_HUMAN	DBF4 homolog B isoform 1	254					cell cycle	nucleus	nucleic acid binding|zinc ion binding				0		Prostate(33;0.0322)				CCTGAAATTTCTTTTCTTGGA	0.483													28	40	---	---	---	---	PASS
EFTUD2	9343	broad.mit.edu	37	17	42931686	42931686	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:42931686G>A	uc002ihn.2	-	23	2559	c.2298C>T	c.(2296-2298)ATC>ATT	p.I766I	EFTUD2_uc010wje.1_Silent_p.I731I|EFTUD2_uc010wjf.1_Silent_p.I756I	NM_004247	NP_004238	Q15029	U5S1_HUMAN	elongation factor Tu GTP binding domain	766						Cajal body|catalytic step 2 spliceosome|cytoplasm|nuclear speck	GTP binding|GTPase activity|protein binding			ovary(1)	1		Prostate(33;0.109)				AACCTTGAACGATGCTGTCCT	0.567													20	56	---	---	---	---	PASS
CDC27	996	broad.mit.edu	37	17	45258960	45258960	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:45258960G>T	uc002ild.3	-	2	198	c.71C>A	c.(70-72)GCG>GAG	p.A24E	CDC27_uc002ile.3_Missense_Mutation_p.A24E|CDC27_uc002ilf.3_Missense_Mutation_p.A24E|CDC27_uc010wkp.1_Nonsense_Mutation_p.C12*|CDC27_uc010wkq.1_RNA	NM_001256	NP_001247	P30260	CDC27_HUMAN	cell division cycle protein 27 isoform 2	24					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						GAGGAAAACCGCATCTCGGTA	0.348													3	17	---	---	---	---	PASS
CDK5RAP3	80279	broad.mit.edu	37	17	46058875	46058875	+	3'UTR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:46058875C>T	uc002imr.2	+	14					CDK5RAP3_uc010wlc.1_3'UTR|CDK5RAP3_uc002imq.1_Intron|CDK5RAP3_uc002imu.2_3'UTR|CDK5RAP3_uc002ims.2_3'UTR|CDK5RAP3_uc002imv.2_3'UTR|CDK5RAP3_uc002imw.2_3'UTR|CDK5RAP3_uc002imx.2_3'UTR	NM_176096	NP_788276	Q96JB5	CK5P3_HUMAN	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						GTGACACCCTCCGTGTTCTTG	0.532													13	37	---	---	---	---	PASS
NFE2L1	4779	broad.mit.edu	37	17	46133781	46133781	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:46133781G>A	uc002imz.3	+	3	1195	c.544G>A	c.(544-546)GAT>AAT	p.D182N	NFE2L1_uc002ina.3_Missense_Mutation_p.D182N|NFE2L1_uc002inb.3_Missense_Mutation_p.D182N|NFE2L1_uc010wle.1_Missense_Mutation_p.D24N|NFE2L1_uc010wlf.1_Missense_Mutation_p.D56N|NFE2L1_uc002inc.1_Missense_Mutation_p.D171N	NM_003204	NP_003195	Q14494	NF2L1_HUMAN	nuclear factor erythroid 2-like 1	182	Asp/Glu-rich (acidic).				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						TTGGCGACAGGATATTGATCT	0.522													68	230	---	---	---	---	PASS
HOXB1	3211	broad.mit.edu	37	17	46607016	46607016	+	Silent	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:46607016G>T	uc002ink.1	-	2	805	c.799C>A	c.(799-801)CGG>AGG	p.R267R		NM_002144	NP_002135	P14653	HXB1_HUMAN	homeobox B1	267						nucleus	protein domain specific binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						GGGGGGACCCGACCTTCCTCT	0.612													24	38	---	---	---	---	PASS
PRAC	84366	broad.mit.edu	37	17	46799691	46799691	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:46799691G>A	uc002iny.2	-	1	192	c.64C>T	c.(64-66)CTC>TTC	p.L22F	C17orf93_uc002inz.1_5'Flank	NM_032391	NP_115767	Q96KF2	PRAC_HUMAN	prostate cancer susceptibility candidate	22						nucleus					0						TTATTAGAGAGAAAAGCACTC	0.542													19	34	---	---	---	---	PASS
CALCOCO2	10241	broad.mit.edu	37	17	46925694	46925694	+	Silent	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:46925694G>T	uc002iof.2	+	4	373	c.294G>T	c.(292-294)CTG>CTT	p.L98L	CALCOCO2_uc010wlp.1_Silent_p.L119L|CALCOCO2_uc010wlq.1_Silent_p.L26L|CALCOCO2_uc010wlr.1_Silent_p.L122L|CALCOCO2_uc010wls.1_Silent_p.L98L	NM_005831	NP_005822	Q13137	CACO2_HUMAN	calcium binding and coiled-coil domain 2	98					response to interferon-gamma|viral reproduction	cytoskeleton|Golgi apparatus|nucleus|perinuclear region of cytoplasm|soluble fraction	protein homodimerization activity			ovary(1)	1						CTTACTACCTGCCCAAGGATG	0.398													18	25	---	---	---	---	PASS
MYST2	11143	broad.mit.edu	37	17	47874115	47874115	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:47874115C>T	uc002ipm.2	+	3	293	c.167C>T	c.(166-168)TCC>TTC	p.S56F	MYST2_uc002ipl.1_Missense_Mutation_p.S56F|MYST2_uc010wma.1_Intron|MYST2_uc010wmb.1_Missense_Mutation_p.S56F|MYST2_uc010wmc.1_Intron|MYST2_uc010wmd.1_5'UTR|MYST2_uc010wme.1_5'UTR	NM_007067	NP_008998	O95251	MYST2_HUMAN	MYST histone acetyltransferase 2	56	Ser-rich.				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						GGATCAGATTCCAGTCCTGTT	0.428													20	77	---	---	---	---	PASS
SGCA	6442	broad.mit.edu	37	17	48244988	48244988	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:48244988G>A	uc002iqi.2	+	3	239	c.203G>A	c.(202-204)GGA>GAA	p.G68E	SGCA_uc010wmh.1_Intron|SGCA_uc002iqj.2_Missense_Mutation_p.G68E|SGCA_uc010wmi.1_RNA	NM_000023	NP_000014	Q16586	SGCA_HUMAN	sarcoglycan, alpha isoform 1 precursor	68	Extracellular (Potential).		G -> E (in LGMD2D).		muscle contraction|muscle organ development	cytoplasm|cytoskeleton|integral to membrane|sarcoglycan complex|sarcolemma	calcium ion binding			ovary(2)	2						CACCTCCAGGGACACCCAGAC	0.672													11	19	---	---	---	---	PASS
COL1A1	1277	broad.mit.edu	37	17	48266110	48266110	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:48266110C>T	uc002iqm.2	-	42	3218	c.3092G>A	c.(3091-3093)GGC>GAC	p.G1031D		NM_000088	NP_000079	P02452	CO1A1_HUMAN	alpha 1 type I collagen preproprotein	1031	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		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(7)|skin(1)|breast(1)|pancreas(1)	382					Collagenase(DB00048)|Palifermin(DB00039)	TACCTTGGCGCCAGGAGAACC	0.617			T	PDGFB|USP6	dermatofibrosarcoma protuberans|aneurysmal bone cyst 		Osteogenesis imperfecta						9	35	---	---	---	---	PASS
COL1A1	1277	broad.mit.edu	37	17	48269882	48269882	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:48269882G>A	uc002iqm.2	-	29	2063	c.1937C>T	c.(1936-1938)CCT>CTT	p.P646L		NM_000088	NP_000079	P02452	CO1A1_HUMAN	alpha 1 type I collagen preproprotein	646	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		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(7)|skin(1)|breast(1)|pancreas(1)	382					Collagenase(DB00048)|Palifermin(DB00039)	AGCAGGACCAGGGAGACCCTG	0.582			T	PDGFB|USP6	dermatofibrosarcoma protuberans|aneurysmal bone cyst 		Osteogenesis imperfecta						19	12	---	---	---	---	PASS
COL1A1	1277	broad.mit.edu	37	17	48270367	48270367	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:48270367G>A	uc002iqm.2	-	26	1935	c.1809C>T	c.(1807-1809)CCC>CCT	p.P603P		NM_000088	NP_000079	P02452	CO1A1_HUMAN	alpha 1 type I collagen preproprotein	603	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		COL1A1/PDGFB(372)	soft_tissue(372)|central_nervous_system(7)|skin(1)|breast(1)|pancreas(1)	382					Collagenase(DB00048)|Palifermin(DB00039)	CAGCGCCAGGGGGTCCGGGAA	0.632			T	PDGFB|USP6	dermatofibrosarcoma protuberans|aneurysmal bone cyst 		Osteogenesis imperfecta						5	18	---	---	---	---	PASS
CACNA1G	8913	broad.mit.edu	37	17	48695421	48695421	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:48695421G>A	uc002irk.1	+	31	5611	c.5239G>A	c.(5239-5241)GGA>AGA	p.G1747R	CACNA1G_uc002irj.1_Missense_Mutation_p.G1713R|CACNA1G_uc002irl.1_Missense_Mutation_p.G1724R|CACNA1G_uc002irm.1_Missense_Mutation_p.G1713R|CACNA1G_uc002irn.1_Missense_Mutation_p.G1706R|CACNA1G_uc002iro.1_Missense_Mutation_p.G1713R|CACNA1G_uc002irp.1_Missense_Mutation_p.G1747R|CACNA1G_uc002irq.1_Missense_Mutation_p.G1724R|CACNA1G_uc002irr.1_Missense_Mutation_p.G1747R|CACNA1G_uc002irs.1_Missense_Mutation_p.G1736R|CACNA1G_uc002irt.1_Missense_Mutation_p.G1729R|CACNA1G_uc002irv.1_Missense_Mutation_p.G1736R|CACNA1G_uc002irw.1_Missense_Mutation_p.G1724R|CACNA1G_uc002iru.1_Missense_Mutation_p.G1713R|CACNA1G_uc002irx.1_Missense_Mutation_p.G1660R|CACNA1G_uc002iry.1_Missense_Mutation_p.G1649R|CACNA1G_uc002irz.1_Missense_Mutation_p.G1653R|CACNA1G_uc002isa.1_Missense_Mutation_p.G1626R|CACNA1G_uc002isb.1_Missense_Mutation_p.G1667R|CACNA1G_uc002isc.1_Missense_Mutation_p.G1649R|CACNA1G_uc002isd.1_Missense_Mutation_p.G1635R|CACNA1G_uc002ise.1_Missense_Mutation_p.G1615R|CACNA1G_uc002isf.1_Missense_Mutation_p.G1642R|CACNA1G_uc002isg.1_Missense_Mutation_p.G1608R|CACNA1G_uc002ish.1_Missense_Mutation_p.G1615R|CACNA1G_uc002isi.1_Missense_Mutation_p.G1603R	NM_018896	NP_061496	O43497	CAC1G_HUMAN	voltage-dependent calcium channel alpha 1G	1747	Helical; Name=S5 of repeat IV; (Potential).|IV.				axon guidance	voltage-gated calcium channel complex	low voltage-gated calcium channel activity			breast(1)	1	Breast(11;6.7e-17)		BRCA - Breast invasive adenocarcinoma(22;7.52e-09)		Ethosuximide(DB00593)|Flunarizine(DB04841)|Levetiracetam(DB01202)|Mibefradil(DB01388)|Pimozide(DB01100)|Trimethadione(DB00347)|Verapamil(DB00661)|Zonisamide(DB00909)	GGGGAACCTGGGACTTCTCTT	0.557													5	21	---	---	---	---	PASS
LUC7L3	51747	broad.mit.edu	37	17	48817660	48817660	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:48817660C>T	uc002isr.2	+						LUC7L3_uc002isp.1_Intron|LUC7L3_uc010wmw.1_Intron|LUC7L3_uc002isq.2_Intron|LUC7L3_uc002iss.2_Intron	NM_006107	NP_006098	O95232	LC7L3_HUMAN	LUC7-like 3						apoptosis|mRNA processing|response to stress|RNA splicing	focal adhesion|nuclear speck	DNA binding|mRNA binding|protein binding				0						TATATTTTTTCCCCCAGGTCC	0.299													4	18	---	---	---	---	PASS
LUC7L3	51747	broad.mit.edu	37	17	48817661	48817661	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:48817661C>T	uc002isr.2	+						LUC7L3_uc002isp.1_Intron|LUC7L3_uc010wmw.1_Intron|LUC7L3_uc002isq.2_Intron|LUC7L3_uc002iss.2_Intron	NM_006107	NP_006098	O95232	LC7L3_HUMAN	LUC7-like 3						apoptosis|mRNA processing|response to stress|RNA splicing	focal adhesion|nuclear speck	DNA binding|mRNA binding|protein binding				0						ATATTTTTTCCCCCAGGTCCG	0.303													4	20	---	---	---	---	PASS
WFIKKN2	124857	broad.mit.edu	37	17	48917207	48917207	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:48917207C>T	uc002isv.3	+	2	1252	c.558C>T	c.(556-558)CCC>CCT	p.P186P	WFIKKN2_uc010dbu.2_Silent_p.P93P	NM_175575	NP_783165	Q8TEU8	WFKN2_HUMAN	WFIKKN2 protein	186						extracellular region	metalloendopeptidase inhibitor activity|protein binding|serine-type endopeptidase inhibitor activity			ovary(2)|skin(1)	3			BRCA - Breast invasive adenocarcinoma(22;1.09e-08)			ACACCAGCCCCCCACCACCTG	0.622													8	15	---	---	---	---	PASS
ANKFN1	162282	broad.mit.edu	37	17	54534322	54534322	+	Splice_Site	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:54534322G>A	uc002iun.1	+	11	1351	c.1316_splice	c.e11+1	p.R439_splice		NM_153228	NP_694960	Q8N957	ANKF1_HUMAN	ankyrin-repeat and fibronectin type III domain											large_intestine(1)|ovary(1)	2						CCTTAAAACGGTGGGTTCTAT	0.383													9	33	---	---	---	---	PASS
SCPEP1	59342	broad.mit.edu	37	17	55065573	55065573	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:55065573C>T	uc002iuv.3	+						SCPEP1_uc010dcl.2_Intron|SCPEP1_uc010wnk.1_Intron	NM_021626	NP_067639	Q9HB40	RISC_HUMAN	serine carboxypeptidase 1 precursor						proteolysis	extracellular region	serine-type carboxypeptidase activity			skin(1)	1	Breast(9;2.86e-08)					CCTTTTCTTGCTAGACAGTTC	0.338													19	34	---	---	---	---	PASS
EPX	8288	broad.mit.edu	37	17	56271340	56271340	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:56271340G>A	uc002ivq.2	+	5	567	c.481G>A	c.(481-483)GGG>AGG	p.G161R		NM_000502	NP_000493	P11678	PERE_HUMAN	eosinophil peroxidase preproprotein	161					hydrogen peroxide catabolic process		heme binding|peroxidase activity|protein binding			ovary(2)	2						ACCCTTGCTAGGGGCCTCCAA	0.667													4	13	---	---	---	---	PASS
MKS1	54903	broad.mit.edu	37	17	56285516	56285516	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:56285516G>A	uc002ivr.1	-	13	1190	c.1115C>T	c.(1114-1116)TCC>TTC	p.S372F	MKS1_uc010wnq.1_Missense_Mutation_p.S169F|MKS1_uc002ivs.1_Missense_Mutation_p.S372F	NM_017777	NP_060247	Q9NXB0	MKS1_HUMAN	Meckel syndrome type 1 protein isoform 1	372	B9.				cilium assembly	centrosome|cilium|microtubule basal body	protein binding			ovary(1)	1						GAATGGGTAGGAGAAGTGAGC	0.502													14	18	---	---	---	---	PASS
MPO	4353	broad.mit.edu	37	17	56350926	56350926	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:56350926G>A	uc002ivu.1	-	9	1647	c.1470C>T	c.(1468-1470)ATC>ATT	p.I490I		NM_000250	NP_000241	P05164	PERM_HUMAN	myeloperoxidase	490					anti-apoptosis|hydrogen peroxide catabolic process|low-density lipoprotein particle remodeling	extracellular space|lysosome|nucleus|stored secretory granule	chromatin binding|heme binding|heparin binding|peroxidase activity			ovary(2)|large_intestine(1)|pancreas(1)	4					Cefdinir(DB00535)	AGACGTTGGCGATGCGTGGGT	0.602													18	56	---	---	---	---	PASS
TEX14	56155	broad.mit.edu	37	17	56649316	56649316	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:56649316G>A	uc010dcz.1	-	25	3939	c.3821C>T	c.(3820-3822)TCC>TTC	p.S1274F	TEX14_uc002iwr.1_Missense_Mutation_p.S1268F|TEX14_uc002iws.1_Missense_Mutation_p.S1228F|TEX14_uc010dda.1_Missense_Mutation_p.S1008F	NM_198393	NP_938207	Q8IWB6	TEX14_HUMAN	testis expressed sequence 14 isoform a	1274						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)					AGTTTCAGAGGAAGTAAGGAG	0.433													24	42	---	---	---	---	PASS
TEX14	56155	broad.mit.edu	37	17	56663264	56663264	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:56663264C>T	uc010dcz.1	-	18	3104	c.2986G>A	c.(2986-2988)GAA>AAA	p.E996K	TEX14_uc002iwr.1_Missense_Mutation_p.E990K|TEX14_uc002iws.1_Missense_Mutation_p.E990K|TEX14_uc010dda.1_Missense_Mutation_p.E770K	NM_198393	NP_938207	Q8IWB6	TEX14_HUMAN	testis expressed sequence 14 isoform a	996						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)					TCATCATTTTCCCTATGATAC	0.527													13	80	---	---	---	---	PASS
PPM1E	22843	broad.mit.edu	37	17	57033100	57033100	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:57033100G>A	uc002iwx.2	+	2	682	c.555G>A	c.(553-555)AAG>AAA	p.K185K	PPM1E_uc010ddd.2_Missense_Mutation_p.R15K	NM_014906	NP_055721	Q8WY54	PPM1E_HUMAN	protein phosphatase 1E	194					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)			ATATCCCAAAGGAAACGGATG	0.403													18	72	---	---	---	---	PASS
USP32	84669	broad.mit.edu	37	17	58332618	58332618	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:58332618A>T	uc002iyo.1	-	10	1278	c.992T>A	c.(991-993)ATG>AAG	p.M331K	USP32_uc002iyn.1_Missense_Mutation_p.M1K|USP32_uc010wov.1_Missense_Mutation_p.M331K	NM_032582	NP_115971	Q8NFA0	UBP32_HUMAN	ubiquitin specific protease 32	331					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)			AAGATGACCCATCTGAAACAG	0.259													8	31	---	---	---	---	PASS
BCAS3	54828	broad.mit.edu	37	17	59118147	59118147	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:59118147C>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	Q9H6U6	BCAS3_HUMAN	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)			TCTCCTGTTTCCTTAGAACCC	0.398													20	56	---	---	---	---	PASS
BRIP1	83990	broad.mit.edu	37	17	59885938	59885938	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:59885938C>T	uc002izk.1	-	7	949	c.808G>A	c.(808-810)GGG>AGG	p.G270R		NM_032043	NP_114432	Q9BX63	FANCJ_HUMAN	BRCA1 interacting protein C-terminal helicase 1	270	Helicase ATP-binding.				DNA damage checkpoint|double-strand break repair|regulation of transcription from RNA polymerase II promoter	cytoplasm|nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding|protein binding			ovary(1)	1						ATTGGAACCCCTGAATATGCC	0.443			F|N|Mis			AML|leukemia|breast		Direct_reversal_of_damage|Involved_in_tolerance_or_repair_of_DNA_crosslinks	Fanconi_Anemia				20	54	---	---	---	---	PASS
INTS2	57508	broad.mit.edu	37	17	59944991	59944991	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:59944991G>A	uc002izn.2	-	25	3618	c.3542C>T	c.(3541-3543)CCT>CTT	p.P1181L	INTS2_uc002izm.2_Missense_Mutation_p.P1173L	NM_020748	NP_065799	Q9H0H0	INT2_HUMAN	integrator complex subunit 2	1181					snRNA processing	integral to membrane|integrator complex|nuclear membrane	protein binding			ovary(1)|lung(1)|pancreas(1)	3						CTGTACATCAGGATCCATGCT	0.328													19	25	---	---	---	---	PASS
MED13	9969	broad.mit.edu	37	17	60040321	60040321	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:60040321C>A	uc002izo.2	-	21	4933	c.4856G>T	c.(4855-4857)CGG>CTG	p.R1619L		NM_005121	NP_005112	Q9UHV7	MED13_HUMAN	mediator complex subunit 13	1619					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						CACTTTATCCCGATCCATCGT	0.398													4	58	---	---	---	---	PASS
MRC2	9902	broad.mit.edu	37	17	60753195	60753195	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:60753195C>T	uc002jad.2	+	10	2016	c.1614C>T	c.(1612-1614)GAC>GAT	p.D538D	MRC2_uc002jac.2_Silent_p.D538D|MRC2_uc010ddq.1_5'Flank	NM_006039	NP_006030	Q9UBG0	MRC2_HUMAN	mannose receptor, C type 2	538	Extracellular (Potential).|C-type lectin 3.				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(1)|central_nervous_system(1)|skin(1)	3						TGGGAGAAGACCAAGTGACCT	0.607													11	54	---	---	---	---	PASS
MRC2	9902	broad.mit.edu	37	17	60753196	60753196	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:60753196C>T	uc002jad.2	+	10	2017	c.1615C>T	c.(1615-1617)CAA>TAA	p.Q539*	MRC2_uc002jac.2_Nonsense_Mutation_p.Q539*|MRC2_uc010ddq.1_5'Flank	NM_006039	NP_006030	Q9UBG0	MRC2_HUMAN	mannose receptor, C type 2	539	Extracellular (Potential).|C-type lectin 3.				endocytosis	integral to membrane	receptor activity|sugar binding			ovary(1)|central_nervous_system(1)|skin(1)	3						GGGAGAAGACCAAGTGACCTA	0.612													11	54	---	---	---	---	PASS
TANC2	26115	broad.mit.edu	37	17	61345178	61345178	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:61345178C>T	uc002jal.3	+	7	904	c.881C>T	c.(880-882)TCT>TTT	p.S294F	TANC2_uc010wpe.1_Missense_Mutation_p.S204F	NM_025185	NP_079461	Q9HCD6	TANC2_HUMAN	tetratricopeptide repeat, ankyrin repeat and	294							binding			ovary(2)	2						TTGAGAACTTCTCTACGAATG	0.483													15	31	---	---	---	---	PASS
MAP3K3	4215	broad.mit.edu	37	17	61768455	61768455	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:61768455C>T	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	Q99759	M3K3_HUMAN	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						ACTGACCCCTCCCCTAGGAGG	0.607													16	16	---	---	---	---	PASS
ERN1	2081	broad.mit.edu	37	17	62121422	62121422	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:62121422C>T	uc002jdz.2	-	22	2973	c.2860G>A	c.(2860-2862)GAG>AAG	p.E954K	uc002jdy.1_5'Flank	NM_001433	NP_001424	O75460	ERN1_HUMAN	endoplasmic reticulum to nucleus signalling 1	954	Cytoplasmic (Potential).|KEN.				activation of signaling protein activity involved in unfolded protein response|apoptosis|cell cycle arrest|induction of apoptosis|mRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to endoplasmic reticulum membrane	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|magnesium ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(4)|lung(2)|stomach(1)|ovary(1)|kidney(1)	9						AAGAGTCTCTCGTGGCTGCAC	0.657													9	35	---	---	---	---	PASS
ERN1	2081	broad.mit.edu	37	17	62137873	62137873	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:62137873C>T	uc002jdz.2	-	11	1275	c.1162G>A	c.(1162-1164)GAA>AAA	p.E388K		NM_001433	NP_001424	O75460	ERN1_HUMAN	endoplasmic reticulum to nucleus signalling 1	388	Lumenal (Potential).				activation of signaling protein activity involved in unfolded protein response|apoptosis|cell cycle arrest|induction of apoptosis|mRNA processing|regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to endoplasmic reticulum membrane	ATP binding|endoribonuclease activity, producing 5'-phosphomonoesters|magnesium ion binding|protein binding|protein serine/threonine kinase activity			central_nervous_system(4)|lung(2)|stomach(1)|ovary(1)|kidney(1)	9						ATCACATTTTCCCGATGTTTG	0.413													18	53	---	---	---	---	PASS
RGS9	8787	broad.mit.edu	37	17	63193340	63193340	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:63193340C>T	uc002jfe.2	+	13	1067	c.957C>T	c.(955-957)TTC>TTT	p.F319F	RGS9_uc010dem.2_Silent_p.F316F|RGS9_uc002jfd.2_Silent_p.F316F|RGS9_uc002jff.2_RNA|RGS9_uc002jfg.2_Silent_p.F90F	NM_003835	NP_003826	O75916	RGS9_HUMAN	regulator of G-protein signaling 9 isoform 1	319	RGS.			F -> S (in Ref. 3; AAM12647).	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						TCCAGTACTTCCTCAAGAAAG	0.433													4	19	---	---	---	---	PASS
AXIN2	8313	broad.mit.edu	37	17	63532556	63532556	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:63532556G>A	uc002jfi.2	-	8	2312	c.2023C>T	c.(2023-2025)CGT>TGT	p.R675C	AXIN2_uc002jfh.2_Missense_Mutation_p.R610C	NM_004655	NP_004646	Q9Y2T1	AXIN2_HUMAN	axin 2	675					cellular protein localization|cellular response to organic cyclic compound|dorsal/ventral axis specification|intramembranous ossification|maintenance of DNA repeat elements|mRNA stabilization|negative regulation of canonical Wnt receptor signaling pathway|negative regulation of catenin import into nucleus|negative regulation of cell proliferation|negative regulation of osteoblast differentiation|odontogenesis|positive regulation of cell death|positive regulation of epithelial to mesenchymal transition|positive regulation of protein phosphorylation|regulation of centromeric sister chromatid cohesion|regulation of mismatch repair|Wnt receptor signaling pathway involved in somitogenesis	Axin-APC-beta-catenin-GSK3B complex|cell cortex|centrosome|cytoplasmic membrane-bounded vesicle|cytoplasmic microtubule|nucleus|plasma membrane|postsynaptic density	armadillo repeat domain binding|beta-catenin binding|GTPase activator activity|protein kinase binding|signal transducer activity|ubiquitin protein ligase binding			central_nervous_system(1)|skin(1)	2						AGGTGGGCACGGGGGGTGGTG	0.692									Oligodontia_Ectodermal_Dysplasia_and_Colorectal_Polyp_syndrome				4	17	---	---	---	---	PASS
CCDC46	201134	broad.mit.edu	37	17	63822421	63822421	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:63822421C>T	uc002jfl.2	-						CCDC46_uc010deo.2_Intron|CCDC46_uc002jfm.2_Intron|CCDC46_uc010dep.2_Intron|CCDC46_uc002jfk.2_5'UTR	NM_145036	NP_659473	Q8N8E3	CE112_HUMAN	coiled-coil domain containing 46 isoform a							centrosome					0			BRCA - Breast invasive adenocarcinoma(6;1.53e-06)			CCCACATCTTCGTTGACCCCC	0.498													58	84	---	---	---	---	PASS
CCDC46	201134	broad.mit.edu	37	17	63923748	63923748	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:63923748C>T	uc002jfl.2	-	19	2151	c.1932G>A	c.(1930-1932)AAG>AAA	p.K644K	CCDC46_uc010deo.2_Silent_p.K386K|CCDC46_uc002jfm.2_Silent_p.K644K|CCDC46_uc010dep.2_Silent_p.K602K	NM_145036	NP_659473	Q8N8E3	CE112_HUMAN	coiled-coil domain containing 46 isoform a	644	Potential.					centrosome					0			BRCA - Breast invasive adenocarcinoma(6;1.53e-06)			ATAAAAACTCCTTTGATTGTT	0.294													20	27	---	---	---	---	PASS
APOH	350	broad.mit.edu	37	17	64210728	64210728	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:64210728G>A	uc002jfn.3	-	7	884	c.825C>T	c.(823-825)TAC>TAT	p.Y275Y		NM_000042	NP_000033	P02749	APOH_HUMAN	apolipoprotein H precursor	275	Sushi-like.				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)			TCTCTCCTTGGTACACCACAG	0.358													12	49	---	---	---	---	PASS
BPTF	2186	broad.mit.edu	37	17	65889712	65889712	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:65889712G>A	uc002jgf.2	+	6	2343	c.2282G>A	c.(2281-2283)GGA>GAA	p.G761E	BPTF_uc002jge.2_Missense_Mutation_p.G887E|BPTF_uc010wqm.1_Missense_Mutation_p.G824E	NM_182641	NP_872579	Q12830	BPTF_HUMAN	bromodomain PHD finger transcription factor	887	Interaction with MAZ.				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)			ACTCCAGCAGGAGAGTTCAAA	0.428													10	32	---	---	---	---	PASS
MIR635	693220	broad.mit.edu	37	17	66420657	66420657	+	RNA	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:66420657T>A	hsa-mir-635|MI0003650	-			c.33T>A			WIPI1_uc010dey.2_Intron|WIPI1_uc002jhd.3_Intron|WIPI1_uc010wqo.1_Intron|WIPI1_uc002jhe.3_Intron																	0						CTAATGGACATTGTTTCAGTG	0.413													8	11	---	---	---	---	PASS
ABCA9	10350	broad.mit.edu	37	17	67045415	67045415	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:67045415G>A	uc002jhu.2	-						ABCA9_uc010dez.2_Intron|ABCA9_uc002jhv.2_Intron	NM_080283	NP_525022	Q8IUA7	ABCA9_HUMAN	ATP-binding cassette, sub-family A, member 9						transport	integral to membrane	ATP binding|ATPase activity			ovary(4)|upper_aerodigestive_tract(1)|central_nervous_system(1)	6	Breast(10;1.47e-12)					GAACAACCAGGGAACATACCT	0.323													10	47	---	---	---	---	PASS
ABCA10	10349	broad.mit.edu	37	17	67152075	67152075	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:67152075G>A	uc010dfa.1	-						ABCA10_uc010wqs.1_Intron|ABCA10_uc010wqt.1_Intron	NM_080282	NP_525021	Q8WWZ4	ABCAA_HUMAN	ATP-binding cassette, sub-family A, member 10						transport	integral to membrane	ATP binding|ATPase activity			ovary(2)|central_nervous_system(1)|skin(1)	4	Breast(10;6.95e-12)					TTCTACAGAGGAAATAAAATA	0.348													19	35	---	---	---	---	PASS
ABCA5	23461	broad.mit.edu	37	17	67243792	67243792	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:67243792G>A	uc002jif.2	-						ABCA10_uc010dfa.1_5'Flank|ABCA5_uc002jib.2_Intron|ABCA5_uc002jic.2_Intron|ABCA5_uc002jid.2_Intron|ABCA5_uc002jie.2_Intron|ABCA5_uc002jig.2_Intron	NM_018672	NP_061142	Q8WWZ7	ABCA5_HUMAN	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)					AAACCTAGGTGAAAAGAAATA	0.333													10	30	---	---	---	---	PASS
ABCA5	23461	broad.mit.edu	37	17	67293357	67293357	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:67293357C>T	uc002jif.2	-	9	2629	c.1411G>A	c.(1411-1413)GAA>AAA	p.E471K	ABCA5_uc002jie.2_RNA|ABCA5_uc002jig.2_Missense_Mutation_p.E471K|ABCA5_uc002jih.2_Missense_Mutation_p.E471K|ABCA5_uc010dfe.2_Missense_Mutation_p.E471K	NM_018672	NP_061142	Q8WWZ7	ABCA5_HUMAN	ATP-binding cassette, sub-family A , member 5	471					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)					CCTACAAATTCTGAAGAAACT	0.303													8	33	---	---	---	---	PASS
MAP2K6	5608	broad.mit.edu	37	17	67515456	67515456	+	Silent	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:67515456G>T	uc002jij.2	+	5	537	c.249G>T	c.(247-249)CGG>CGT	p.R83R	MAP2K6_uc002jii.2_Silent_p.R83R|MAP2K6_uc002jik.2_Silent_p.R113R	NM_002758	NP_002749	P52564	MP2K6_HUMAN	mitogen-activated protein kinase kinase 6	83	Protein kinase.				activation of MAPK activity|cell cycle arrest|DNA damage induced protein phosphorylation|innate immune response|muscle cell differentiation|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of muscle cell differentiation|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity			lung(2)|stomach(1)|ovary(1)|pancreas(1)	5	Breast(10;6.05e-10)					CCATTCAGCGGATCCGAGCCA	0.458													9	48	---	---	---	---	PASS
SDK2	54549	broad.mit.edu	37	17	71394475	71394475	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:71394475G>A	uc010dfm.2	-	23	3187	c.3187C>T	c.(3187-3189)CCC>TCC	p.P1063S	SDK2_uc002jjt.3_Missense_Mutation_p.P222S|SDK2_uc010dfn.2_Missense_Mutation_p.P742S	NM_001144952	NP_001138424	Q58EX2	SDK2_HUMAN	sidekick 2	1063	Fibronectin type-III 5.|Extracellular (Potential).				cell adhesion	integral to membrane				ovary(2)	2						CAGGTGAAGGGGTTGAGGTCG	0.637													22	25	---	---	---	---	PASS
TTYH2	94015	broad.mit.edu	37	17	72245532	72245532	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:72245532C>T	uc002jkc.2	+	8	955	c.924C>T	c.(922-924)TTC>TTT	p.F308F	TTYH2_uc010wqw.1_Silent_p.F287F|TTYH2_uc002jkd.2_5'UTR	NM_032646	NP_116035	Q9BSA4	TTYH2_HUMAN	tweety 2 isoform 1	308	Extracellular (Potential).					chloride channel complex|plasma membrane	chloride channel activity|protein binding			ovary(3)|large_intestine(1)	4						GCAGCCCCTTCCAGCAGGTAT	0.612													26	37	---	---	---	---	PASS
TTYH2	94015	broad.mit.edu	37	17	72249255	72249255	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:72249255C>T	uc002jkc.2	+	12	1326	c.1295C>T	c.(1294-1296)CCC>CTC	p.P432L	TTYH2_uc010wqw.1_Missense_Mutation_p.P411L|TTYH2_uc002jkd.2_Missense_Mutation_p.P111L	NM_032646	NP_116035	Q9BSA4	TTYH2_HUMAN	tweety 2 isoform 1	432	Cytoplasmic (Potential).					chloride channel complex|plasma membrane	chloride channel activity|protein binding			ovary(3)|large_intestine(1)	4						GATGATGACCCCTTTAACCCC	0.582													27	50	---	---	---	---	PASS
DNAI2	64446	broad.mit.edu	37	17	72297178	72297178	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:72297178C>T	uc002jkf.2	+						DNAI2_uc002jkg.2_Intron|DNAI2_uc010dfp.2_Intron	NM_023036	NP_075462	Q9GZS0	DNAI2_HUMAN	dynein, axonemal, intermediate polypeptide 2						cilium assembly	axonemal dynein complex|cilium axoneme|cytoplasm|microtubule	microtubule motor activity			ovary(2)|central_nervous_system(1)	3						GCCCCTCCTCCCACCAGGTCA	0.582									Kartagener_syndrome				30	75	---	---	---	---	PASS
KIF19	124602	broad.mit.edu	37	17	72346967	72346967	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:72346967G>A	uc002jkm.3	+	12	1648	c.1510G>A	c.(1510-1512)GAG>AAG	p.E504K	KIF19_uc002jkj.2_Missense_Mutation_p.E504K|KIF19_uc002jkk.2_Missense_Mutation_p.E462K|KIF19_uc002jkl.2_Missense_Mutation_p.E462K	NM_153209	NP_694941	Q2TAC6	KIF19_HUMAN	kinesin family member 19	504					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity				0						AGACATCCTGGAGCCACCCGA	0.622													17	44	---	---	---	---	PASS
KIF19	124602	broad.mit.edu	37	17	72351329	72351329	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:72351329G>A	uc002jkm.3	+	20	3013	c.2875G>A	c.(2875-2877)GAC>AAC	p.D959N		NM_153209	NP_694941	Q2TAC6	KIF19_HUMAN	kinesin family member 19	959					microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity				0						AGGCCCGGGGGACTCCTCACC	0.652													14	13	---	---	---	---	PASS
CD300C	10871	broad.mit.edu	37	17	72541058	72541058	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:72541058G>A	uc002jky.1	-	2	451	c.90C>T	c.(88-90)ACC>ACT	p.T30T		NM_006678	NP_006669	Q08708	CLM6_HUMAN	CD300C antigen precursor	30	Extracellular (Potential).|Ig-like V-type.				cellular defense response	integral to plasma membrane	transmembrane receptor activity				0						GGCCCGCCACGGTCATGGGGT	0.577													5	13	---	---	---	---	PASS
CD300E	342510	broad.mit.edu	37	17	72613441	72613441	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:72613441C>T	uc002jlb.1	-	2	245	c.204G>A	c.(202-204)GAG>GAA	p.E68E		NM_181449	NP_852114	Q496F6	CLM2_HUMAN	CD300e molecule precursor	68	Ig-like V-type.|Extracellular (Potential).					integral to membrane|plasma membrane	receptor activity			skin(2)|large_intestine(1)|ovary(1)	4						TCTCCACCTTCTCTTCTCCCT	0.522													15	32	---	---	---	---	PASS
TMEM104	54868	broad.mit.edu	37	17	72791233	72791233	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:72791233C>T	uc002jls.3	+	7	672	c.510C>T	c.(508-510)TCC>TCT	p.S170S	TMEM104_uc010wrf.1_Silent_p.S170S|TMEM104_uc010wrg.1_Silent_p.S183S|TMEM104_uc010dfx.2_Silent_p.S170S	NM_017728	NP_060198	Q8NE00	TM104_HUMAN	transmembrane protein 104	170	Extracellular (Potential).					integral to membrane					0	all_lung(278;0.23)					TGCCCTTCTCCCTCATGCAGG	0.572													15	29	---	---	---	---	PASS
TMEM104	54868	broad.mit.edu	37	17	72832361	72832361	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:72832361C>T	uc002jls.3	+	10	1188	c.1026C>T	c.(1024-1026)TTC>TTT	p.F342F	TMEM104_uc010wrf.1_Intron|TMEM104_uc010wrg.1_Intron|TMEM104_uc010dfx.2_Silent_p.F342F	NM_017728	NP_060198	Q8NE00	TM104_HUMAN	transmembrane protein 104	342	Extracellular (Potential).					integral to membrane					0	all_lung(278;0.23)					CCCTCAACTTCGCGCGCTGTG	0.612													35	100	---	---	---	---	PASS
FADS6	283985	broad.mit.edu	37	17	72888659	72888659	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:72888659G>A	uc002jmd.1	-	2	360	c.348C>T	c.(346-348)TTC>TTT	p.F116F		NM_178128	NP_835229	Q8N9I5	FADS6_HUMAN	fatty acid desaturase domain family, member 6	122	Helical; (Potential).				fatty acid biosynthetic process	integral to membrane	oxidoreductase activity				0	all_lung(278;0.172)|Lung NSC(278;0.207)					CCTCCACAAAGAAAAGCAGCC	0.597													4	19	---	---	---	---	PASS
OTOP2	92736	broad.mit.edu	37	17	72929487	72929487	+	Silent	SNP	C	T	T	rs5018711		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:72929487C>T	uc010wrp.1	+	8	1625	c.1536C>T	c.(1534-1536)GCC>GCT	p.A512A	OTOP3_uc010wrq.1_5'Flank|OTOP3_uc010wrr.1_5'Flank	NM_178160	NP_835454	Q7RTS6	OTOP2_HUMAN	otopetrin 2	512	Helical; (Potential).					integral to membrane				ovary(3)|large_intestine(1)	4	all_lung(278;0.172)|Lung NSC(278;0.207)					TCATGCCTGCCTTCGGGGCCC	0.582													22	48	---	---	---	---	PASS
TRIM47	91107	broad.mit.edu	37	17	73870748	73870748	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:73870748G>A	uc002jpw.2	-	6	1760	c.1733C>T	c.(1732-1734)TCC>TTC	p.S578F	TRIM47_uc002jpv.2_Missense_Mutation_p.S340F	NM_033452	NP_258411	Q96LD4	TRI47_HUMAN	tripartite motif-containing 47	578	B30.2/SPRY.					cytoplasm|nucleus	zinc ion binding			ovary(2)|prostate(1)|lung(1)|breast(1)	5			Epithelial(20;4.23e-06)|all cancers(21;5.24e-06)|BRCA - Breast invasive adenocarcinoma(9;0.00092)|LUSC - Lung squamous cell carcinoma(166;0.154)			GCGGGGCCGGGAGGCCTTCAG	0.662													13	11	---	---	---	---	PASS
UBE2O	63893	broad.mit.edu	37	17	74387585	74387585	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:74387585G>A	uc002jrm.3	-	18	3383	c.3318C>T	c.(3316-3318)ATC>ATT	p.I1106I	UBE2O_uc002jrl.3_Silent_p.I710I	NM_022066	NP_071349	Q9C0C9	UBE2O_HUMAN	ubiquitin-conjugating enzyme E2O	1106							ATP binding|ubiquitin-protein ligase activity			breast(2)|skin(2)|lung(1)	5						GCACCACGCGGATCAGCGCCA	0.577													14	35	---	---	---	---	PASS
ST6GALNAC1	55808	broad.mit.edu	37	17	74621408	74621408	+	3'UTR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:74621408C>T	uc002jsh.2	-	9					ST6GALNAC1_uc002jsi.2_3'UTR|ST6GALNAC1_uc002jsj.2_RNA	NM_018414	NP_060884	Q9NSC7	SIA7A_HUMAN	sialyltransferase 7A						protein glycosylation	integral to Golgi membrane	alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase activity				0						AGCCCTGGCCCCGGTCAGTTC	0.567													3	7	---	---	---	---	PASS
ST6GALNAC1	55808	broad.mit.edu	37	17	74622468	74622468	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:74622468G>A	uc002jsh.2	-	6	1492	c.1318C>T	c.(1318-1320)CGC>TGC	p.R440C	ST6GALNAC1_uc002jsi.2_Missense_Mutation_p.R308C|ST6GALNAC1_uc002jsj.2_Intron	NM_018414	NP_060884	Q9NSC7	SIA7A_HUMAN	sialyltransferase 7A	440	Lumenal (Potential).				protein glycosylation	integral to Golgi membrane	alpha-N-acetylgalactosaminide alpha-2,6-sialyltransferase activity				0						TGCAAGTAGCGGACGTCCTGA	0.552													7	30	---	---	---	---	PASS
MGAT5B	146664	broad.mit.edu	37	17	74928785	74928785	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:74928785G>A	uc002jti.2	+	10	1486	c.1383G>A	c.(1381-1383)GAG>GAA	p.E461E	MGAT5B_uc002jth.2_Silent_p.E450E	NM_198955	NP_945193	Q3V5L5	MGT5B_HUMAN	N-acetylglucosaminyltranferase VB isoform 2	450	Lumenal (Potential).					Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(2)|skin(1)	3						ACGAGACGGAGAAGCGGCTCA	0.632													17	25	---	---	---	---	PASS
MGAT5B	146664	broad.mit.edu	37	17	74942448	74942448	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:74942448C>T	uc002jtj.2	+	1	117	c.54C>T	c.(52-54)TCC>TCT	p.S18S	MGAT5B_uc002jth.2_Intron|MGAT5B_uc002jti.2_Intron			Q3V5L5	MGT5B_HUMAN	RecName: Full=Alpha-1,6-mannosylglycoprotein 6-beta-N-acetylglucosaminyltransferase B;          EC=2.4.1.155;          EC=2.4.1.-; AltName: Full=Alpha-mannoside beta-1,6-N-acetylglucosaminyltransferase B; AltName: Full=Mannoside acetylglucosaminyltransferase 5B; AltName: Full=N-acetylglucosaminyl-transferase Vb; AltName: Full=GlcNAc-T Vb;          Short=hGnTVb;          Short=GNT-Vb; AltName: Full=N-acetylglucosaminyltransferase IX;          Short=GNT-IX;	Error:Variant_position_missing_in_Q3V5L5_after_alignment						Golgi membrane|integral to membrane	alpha-1,6-mannosyl-glycoprotein 6-beta-N-acetylglucosaminyltransferase activity|metal ion binding			ovary(2)|skin(1)	3						TCTGCCCATCCCTCCCACAGG	0.657													9	5	---	---	---	---	PASS
SEPT9	10801	broad.mit.edu	37	17	75488693	75488693	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:75488693C>T	uc002jts.3	+						SEPT9_uc010wtk.1_Intron|SEPT9_uc002jtt.3_Intron|SEPT9_uc002jtu.3_Intron|SEPT9_uc002jtv.2_Intron|SEPT9_uc002jtw.2_Intron|SEPT9_uc010wtl.1_Intron|SEPT9_uc002jty.3_Intron|SEPT9_uc010wtm.1_Intron|SEPT9_uc010wtn.1_Intron|SEPT9_uc010dhd.2_Intron	NM_001113491	NP_001106963	Q9UHD8	SEPT9_HUMAN	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)			TCTCTCCCTCCTTATCCCAGA	0.587													38	66	---	---	---	---	PASS
BIRC5	332	broad.mit.edu	37	17	76212039	76212039	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:76212039C>T	uc002jvg.2	+						BIRC5_uc002jve.1_Intron|BIRC5_uc002jvd.1_Intron|BIRC5_uc010dhk.1_Intron|BIRC5_uc010dhl.1_Intron|BIRC5_uc002jvf.2_Intron|BIRC5_uc002jvh.2_Intron|BIRC5_uc002jvi.2_Intron|EPR1_uc002jvj.1_Intron	NM_001168	NP_001159	O15392	BIRC5_HUMAN	baculoviral IAP repeat-containing protein 5						anti-apoptosis|apoptosis|cell division|chromosome segregation|cytokinesis|establishment of chromosome localization|G2/M transition of mitotic cell cycle|mitosis|mitotic prometaphase|positive regulation of exit from mitosis|positive regulation of mitotic cell cycle|protein complex localization|spindle checkpoint	centriole|chromosome passenger complex|chromosome, centromeric region|cytoplasm|cytoplasmic microtubule|cytosol|interphase microtubule organizing center|midbody|midbody|nuclear chromosome|spindle|spindle microtubule	caspase inhibitor activity|chaperone binding|cobalt ion binding|cofactor binding|cysteine-type endopeptidase inhibitor activity|metal ion binding|microtubule binding|protein heterodimerization activity|protein homodimerization activity|Ran GTPase binding|zinc ion binding			kidney(1)	1			BRCA - Breast invasive adenocarcinoma(99;0.00269)|OV - Ovarian serous cystadenocarcinoma(97;0.153)			TGCCCTTAATCCTTACAGTGg	0.289													10	24	---	---	---	---	PASS
DNAH17	8632	broad.mit.edu	37	17	76435281	76435281	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:76435281G>A	uc010dhp.1	-	18	2918	c.2696C>T	c.(2695-2697)ACC>ATC	p.T899I	DNAH17_uc002jvq.2_Missense_Mutation_p.T184I|DNAH17_uc002jvs.2_RNA					SubName: Full=DNAH17 variant protein; Flags: Fragment;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			ATTGTCTATGGTAAACCCTAG	0.463													9	10	---	---	---	---	PASS
DNAH17	8632	broad.mit.edu	37	17	76455988	76455988	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:76455988C>T	uc010dhp.1	-	5	753	c.531G>A	c.(529-531)AAG>AAA	p.K177K	DNAH17_uc002jvs.2_RNA					SubName: Full=DNAH17 variant protein; Flags: Fragment;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			CCTTGGGGATCTTGCCCCCAG	0.582													8	33	---	---	---	---	PASS
DNAH17	8632	broad.mit.edu	37	17	76547628	76547628	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:76547628G>A	uc002jvv.1	-	12	1592	c.1486C>T	c.(1486-1488)CAG>TAG	p.Q496*						RecName: Full=Dynein heavy chain 17, axonemal; AltName: Full=Axonemal beta dynein heavy chain 17; AltName: Full=Ciliary dynein heavy chain 17; AltName: Full=Ciliary dynein heavy chain-like protein 1; AltName: Full=Axonemal dynein heavy chain-like protein 1; AltName: Full=Dynein light chain 2, axonemal;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			TTCATAGCCTGGGAAATTCCT	0.502													6	33	---	---	---	---	PASS
DNAH17	8632	broad.mit.edu	37	17	76547629	76547629	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:76547629G>A	uc002jvv.1	-	12	1591	c.1485C>T	c.(1483-1485)TCC>TCT	p.S495S						RecName: Full=Dynein heavy chain 17, axonemal; AltName: Full=Axonemal beta dynein heavy chain 17; AltName: Full=Ciliary dynein heavy chain 17; AltName: Full=Ciliary dynein heavy chain-like protein 1; AltName: Full=Axonemal dynein heavy chain-like protein 1; AltName: Full=Dynein light chain 2, axonemal;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			TCATAGCCTGGGAAATTCCTT	0.502													7	33	---	---	---	---	PASS
DNAH17	8632	broad.mit.edu	37	17	76557905	76557905	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:76557905G>A	uc002jvv.1	-	8	939	c.833C>T	c.(832-834)CCC>CTC	p.P278L						RecName: Full=Dynein heavy chain 17, axonemal; AltName: Full=Axonemal beta dynein heavy chain 17; AltName: Full=Ciliary dynein heavy chain 17; AltName: Full=Ciliary dynein heavy chain-like protein 1; AltName: Full=Axonemal dynein heavy chain-like protein 1; AltName: Full=Dynein light chain 2, axonemal;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			GTGGATCAGGGGGATGTTCCC	0.567													5	29	---	---	---	---	PASS
DNAH17	8632	broad.mit.edu	37	17	76565307	76565307	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:76565307G>A	uc002jvv.1	-	5	437	c.331C>T	c.(331-333)CCT>TCT	p.P111S						RecName: Full=Dynein heavy chain 17, axonemal; AltName: Full=Axonemal beta dynein heavy chain 17; AltName: Full=Ciliary dynein heavy chain 17; AltName: Full=Ciliary dynein heavy chain-like protein 1; AltName: Full=Axonemal dynein heavy chain-like protein 1; AltName: Full=Dynein light chain 2, axonemal;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			AGAGAAGAAGGGAATTCCCAA	0.473													5	13	---	---	---	---	PASS
DNAH17	8632	broad.mit.edu	37	17	76565308	76565308	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:76565308G>A	uc002jvv.1	-	5	436	c.330C>T	c.(328-330)TTC>TTT	p.F110F						RecName: Full=Dynein heavy chain 17, axonemal; AltName: Full=Axonemal beta dynein heavy chain 17; AltName: Full=Ciliary dynein heavy chain 17; AltName: Full=Ciliary dynein heavy chain-like protein 1; AltName: Full=Axonemal dynein heavy chain-like protein 1; AltName: Full=Dynein light chain 2, axonemal;											ovary(6)|breast(2)|skin(1)	9			BRCA - Breast invasive adenocarcinoma(99;0.00294)|OV - Ovarian serous cystadenocarcinoma(97;0.0656)			GAGAAGAAGGGAATTCCCAAG	0.468													5	15	---	---	---	---	PASS
USP36	57602	broad.mit.edu	37	17	76831522	76831522	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:76831522G>A	uc002jvz.1	-	4	640	c.315C>T	c.(313-315)TTC>TTT	p.F105F	USP36_uc002jwa.1_Silent_p.F105F|USP36_uc002jwd.1_Silent_p.F105F	NM_025090	NP_079366	Q9P275	UBP36_HUMAN	ubiquitin specific peptidase 36	105					ubiquitin-dependent protein catabolic process	nucleolus	cysteine-type peptidase activity|ubiquitin thiolesterase activity			lung(2)|ovary(1)|breast(1)|kidney(1)	5			BRCA - Breast invasive adenocarcinoma(99;0.000842)|OV - Ovarian serous cystadenocarcinoma(97;0.151)			GCTCCGTGGGGAAAAGCACTT	0.582													10	10	---	---	---	---	PASS
C1QTNF1	114897	broad.mit.edu	37	17	77043612	77043612	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:77043612C>T	uc002jwp.2	+						C1QTNF1_uc002jwq.2_Intron|C1QTNF1_uc002jwr.3_Intron|C1QTNF1_uc002jws.2_Intron|C1QTNF1_uc002jwt.2_Intron	NM_030968	NP_112230	Q9BXJ1	C1QT1_HUMAN	C1q and tumor necrosis factor related protein 1							collagen				ovary(1)	1			BRCA - Breast invasive adenocarcinoma(99;0.0294)|OV - Ovarian serous cystadenocarcinoma(97;0.201)			TTTTCCCATCCCTTTTAGGGG	0.597													38	51	---	---	---	---	PASS
CBX2	84733	broad.mit.edu	37	17	77755583	77755583	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:77755583C>T	uc002jxc.2	+	4	313	c.271C>T	c.(271-273)CGG>TGG	p.R91W	CBX2_uc002jxb.1_Missense_Mutation_p.R91W	NM_005189	NP_005180	Q14781	CBX2_HUMAN	chromobox homolog 2 isoform 1	91	Ser-rich.				cell differentiation|chromatin modification|development of primary sexual characteristics|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	PcG protein complex	DNA binding				0			OV - Ovarian serous cystadenocarcinoma(97;0.0102)|BRCA - Breast invasive adenocarcinoma(99;0.0224)			CTCCTGCAGCCGGCGCTCCAA	0.657													10	18	---	---	---	---	PASS
TBC1D16	125058	broad.mit.edu	37	17	77924299	77924299	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:77924299C>T	uc002jxj.2	-	6	1284	c.1168G>A	c.(1168-1170)GAG>AAG	p.E390K	TBC1D16_uc002jxh.2_Missense_Mutation_p.E28K|TBC1D16_uc002jxi.2_Missense_Mutation_p.E29K|TBC1D16_uc002jxk.1_Missense_Mutation_p.E28K	NM_019020	NP_061893	Q8TBP0	TBC16_HUMAN	TBC1 domain family, member 16	390						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)			TACATGCTCTCCTCGGGGTGC	0.642													3	8	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	17	78282825	78282825	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:78282825G>A	uc002jyf.2	+	14	2652	c.2509G>A	c.(2509-2511)GAG>AAG	p.E837K	uc002jyg.1_Missense_Mutation_p.E568K	NM_020954	NP_066005			hypothetical protein LOC57714																		CAGGATTCCCGAGGAGGCCTT	0.478													15	61	---	---	---	---	PASS
CHMP6	79643	broad.mit.edu	37	17	78969519	78969519	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:78969519G>A	uc002jyw.3	+	4	387	c.309G>A	c.(307-309)GGG>GGA	p.G103G		NM_024591	NP_078867	Q96FZ7	CHMP6_HUMAN	chromatin modifying protein 6	103	Potential.				cellular membrane organization|endosome transport|protein transport	cytosol|endomembrane system|late endosome membrane	protein N-terminus binding			ovary(1)	1	all_neural(118;0.101)		BRCA - Breast invasive adenocarcinoma(99;0.0175)|OV - Ovarian serous cystadenocarcinoma(97;0.0524)			TGATGGAGGGGCTGCAGTTTG	0.567													22	38	---	---	---	---	PASS
SLC38A10	124565	broad.mit.edu	37	17	79263498	79263498	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:79263498G>A	uc002jzz.1	-	2	585	c.210C>T	c.(208-210)GCC>GCT	p.A70A	SLC38A10_uc002kab.2_Silent_p.A70A	NM_001037984	NP_001033073	Q9HBR0	S38AA_HUMAN	solute carrier family 38, member 10 isoform a	70					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)			CACCCAGGCCGGCGTAGGTCC	0.552													10	14	---	---	---	---	PASS
ACTG1	71	broad.mit.edu	37	17	79478502	79478502	+	Missense_Mutation	SNP	G	A	A	rs11549192		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:79478502G>A	uc002kaj.1	-	3	539	c.514C>T	c.(514-516)CCC>TCC	p.P172S	ACTG1_uc002kah.1_Missense_Mutation_p.P50S|ACTG1_uc002kai.1_Missense_Mutation_p.P129S|ACTG1_uc002kak.1_Missense_Mutation_p.P172S|ACTG1_uc010wun.1_Missense_Mutation_p.P172S|ACTG1_uc002kal.1_Missense_Mutation_p.P172S|ACTG1_uc002kag.2_RNA	NM_001614	NP_001605	P63261	ACTG_HUMAN	actin, gamma 1 propeptide	172					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)			ATGGCGTGGGGGAGGGCGTAG	0.647													21	30	---	---	---	---	PASS
C17orf70	80233	broad.mit.edu	37	17	79517271	79517271	+	Intron	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:79517271T>A	uc002kaq.2	-						C17orf70_uc002kao.1_5'Flank|C17orf70_uc010wuq.1_Intron|C17orf70_uc002kap.2_Intron	NM_001109760	NP_001103230	Q0VG06	FP100_HUMAN	Fanconi anemia core complex 100 kDa subunit						DNA repair	cytoplasm|intermediate filament cytoskeleton|nucleoplasm	DNA binding			ovary(1)|skin(1)	2	all_neural(118;0.0878)|Melanoma(429;0.242)		BRCA - Breast invasive adenocarcinoma(99;0.0282)|OV - Ovarian serous cystadenocarcinoma(97;0.0371)			CAGCAGCTCATACCTTCATGC	0.587													21	22	---	---	---	---	PASS
NPLOC4	55666	broad.mit.edu	37	17	79596825	79596825	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:79596825G>A	uc002kat.3	-	2	204	c.22C>T	c.(22-24)CGT>TGT	p.R8C	NPLOC4_uc002kau.3_Missense_Mutation_p.R8C|NPLOC4_uc010wur.1_5'UTR	NM_017921	NP_060391	Q8TAT6	NPL4_HUMAN	nuclear protein localization 4	8					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)			GACTGGACACGAATTATCTGT	0.463													19	62	---	---	---	---	PASS
SLC25A10	1468	broad.mit.edu	37	17	79682059	79682059	+	Missense_Mutation	SNP	T	G	G	rs141074608	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:79682059T>G	uc002kbi.2	+	2	256	c.170T>G	c.(169-171)ATC>AGC	p.I57S	SLC25A10_uc010wut.1_Missense_Mutation_p.I212S|SLC25A10_uc010dif.2_Missense_Mutation_p.I57S|SLC25A10_uc010wuu.1_Missense_Mutation_p.I11S	NM_012140	NP_036272	Q9UBX3	DIC_HUMAN	solute carrier family 25 (mitochondrial carrier;	57	Solcar 1.				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)	ACCGACGGCATCCTGGCACTC	0.662													4	16	---	---	---	---	PASS
SLC25A10	1468	broad.mit.edu	37	17	79684805	79684805	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:79684805C>T	uc002kbi.2	+						SLC25A10_uc010wut.1_Intron|SLC25A10_uc010dif.2_Missense_Mutation_p.P216S|SLC25A10_uc010wuu.1_Intron	NM_012140	NP_036272	Q9UBX3	DIC_HUMAN	solute carrier family 25 (mitochondrial carrier;						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)	TGACGAGCCCCCTCCTCAGGG	0.642													8	6	---	---	---	---	PASS
SIRT7	51547	broad.mit.edu	37	17	79872049	79872049	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:79872049G>A	uc002kcj.1	-						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	Q9NRC8	SIRT7_HUMAN	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)			AGAACCTGTGGAAGCAGACAG	0.602													13	25	---	---	---	---	PASS
NOTUM	147111	broad.mit.edu	37	17	79914614	79914614	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:79914614C>T	uc010wvg.1	-	8	1172	c.900G>A	c.(898-900)GGG>GGA	p.G300G		NM_178493	NP_848588	Q6P988	NOTUM_HUMAN	notum pectinacetylesterase homolog precursor	300						extracellular region	hydrolase activity				0	all_neural(118;0.0878)|Ovarian(332;0.12)		BRCA - Breast invasive adenocarcinoma(99;0.0114)|OV - Ovarian serous cystadenocarcinoma(97;0.0382)			CCGGGACCACCCCGTTCCAGT	0.672													5	9	---	---	---	---	PASS
FASN	2194	broad.mit.edu	37	17	80045900	80045900	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:80045900G>A	uc002kdu.2	-	18	2913	c.2796C>T	c.(2794-2796)TCC>TCT	p.S932S	FASN_uc002kdw.1_Silent_p.S148S	NM_004104	NP_004095	P49327	FAS_HUMAN	fatty acid synthase	932					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)	GTACCTCCAGGGACACTGTCC	0.667													10	17	---	---	---	---	PASS
ZNF750	79755	broad.mit.edu	37	17	80788605	80788605	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:80788605C>T	uc002kga.2	-	3	1896	c.1585G>A	c.(1585-1587)GAA>AAA	p.E529K	TBCD_uc002kfx.1_Intron|TBCD_uc002kfy.1_Intron|TBCD_uc002kfz.2_Intron	NM_024702	NP_078978	Q32MQ0	ZN750_HUMAN	zinc finger protein 750	529						intracellular	zinc ion binding			central_nervous_system(1)	1	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0514)|all_epithelial(8;0.0748)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.149)			TACGTGGGTTCGTGGGTGGCT	0.617													10	29	---	---	---	---	PASS
ZNF750	79755	broad.mit.edu	37	17	80789461	80789461	+	Silent	SNP	C	T	T	rs117000095	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:80789461C>T	uc002kga.2	-	2	1181	c.870G>A	c.(868-870)CCG>CCA	p.P290P	TBCD_uc002kfx.1_Intron|TBCD_uc002kfy.1_Intron|TBCD_uc002kfz.2_Intron	NM_024702	NP_078978	Q32MQ0	ZN750_HUMAN	zinc finger protein 750	290						intracellular	zinc ion binding			central_nervous_system(1)	1	Breast(20;0.000523)|all_neural(118;0.0779)	all_cancers(8;0.0514)|all_epithelial(8;0.0748)	OV - Ovarian serous cystadenocarcinoma(97;0.0868)|BRCA - Breast invasive adenocarcinoma(99;0.149)			GCTTAGGGATCGGCCCCGGGT	0.577													43	64	---	---	---	---	PASS
TBCD	6904	broad.mit.edu	37	17	80828254	80828254	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:80828254G>A	uc002kfz.2	+	14	1603	c.1473G>A	c.(1471-1473)TCG>TCA	p.S491S	TBCD_uc002kfx.1_Silent_p.S474S|TBCD_uc002kfy.1_Silent_p.S491S	NM_005993	NP_005984	Q9BTW9	TBCD_HUMAN	beta-tubulin cofactor D	491					'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)			CTGCAATCTCGAGGTAGGCCC	0.632													10	10	---	---	---	---	PASS
COLEC12	81035	broad.mit.edu	37	18	346394	346394	+	Silent	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:346394A>G	uc002kkm.2	-	5	1443	c.1228T>C	c.(1228-1230)TTA>CTA	p.L410L		NM_130386	NP_569057	Q5KU26	COL12_HUMAN	collectin sub-family member 12	410	Extracellular (Potential).				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)				TCAGTGTCTAACCTCGACCTC	0.413													16	42	---	---	---	---	PASS
EMILIN2	84034	broad.mit.edu	37	18	2892287	2892287	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:2892287G>A	uc002kln.2	+	4	2321	c.2162G>A	c.(2161-2163)GGA>GAA	p.G721E		NM_032048	NP_114437	Q9BXX0	EMIL2_HUMAN	elastin microfibril interfacer 2 precursor	721					cell adhesion	collagen	extracellular matrix constituent conferring elasticity|protein binding			skin(2)|ovary(1)	3				READ - Rectum adenocarcinoma(2;0.1)		TCTATCTCAGGAAATCTTCAG	0.542													19	24	---	---	---	---	PASS
MYOM1	8736	broad.mit.edu	37	18	3155065	3155065	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:3155065C>T	uc002klp.2	-	11	1857	c.1523G>A	c.(1522-1524)GGA>GAA	p.G508E	MYOM1_uc002klq.2_Missense_Mutation_p.G508E	NM_003803	NP_003794	P52179	MYOM1_HUMAN	myomesin 1 isoform a	508						striated muscle myosin thick filament	structural constituent of muscle			ovary(3)|central_nervous_system(1)|pancreas(1)	5						AGCTGGGGCTCCTTCAATCTC	0.527													8	14	---	---	---	---	PASS
MYOM1	8736	broad.mit.edu	37	18	3215053	3215053	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:3215053C>T	uc002klp.2	-	2	503	c.169G>A	c.(169-171)GAG>AAG	p.E57K	MYOM1_uc002klq.2_Missense_Mutation_p.E57K	NM_003803	NP_003794	P52179	MYOM1_HUMAN	myomesin 1 isoform a	57						striated muscle myosin thick filament	structural constituent of muscle			ovary(3)|central_nervous_system(1)|pancreas(1)	5						GCCTCGGACTCCCGGCGGTGC	0.692													4	11	---	---	---	---	PASS
TGIF1	7050	broad.mit.edu	37	18	3456442	3456442	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:3456442G>A	uc002klz.2	+	2	881	c.494G>A	c.(493-495)AGA>AAA	p.R165K	TGIF1_uc002klu.2_Missense_Mutation_p.R16K|TGIF1_uc002klv.2_Missense_Mutation_p.R50K|TGIF1_uc002klx.2_Missense_Mutation_p.R16K|TGIF1_uc002klw.2_Missense_Mutation_p.R36K|TGIF1_uc010dkm.1_Missense_Mutation_p.R36K|TGIF1_uc002kly.2_Missense_Mutation_p.R36K|TGIF1_uc002kma.2_Missense_Mutation_p.R16K|TGIF1_uc002kmb.2_Missense_Mutation_p.R16K|TGIF1_uc002kmc.2_Missense_Mutation_p.R16K	NM_170695	NP_733796	Q15583	TGIF1_HUMAN	TG-interacting factor isoform a	165	Homeobox; TALE-type.|Poly-Arg.				negative regulation of transcription from RNA polymerase II promoter	nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity			ovary(1)	1	Esophageal squamous(4;0.0859)	Colorectal(8;0.0104)				TCAGGCAAGAGAAGGAGAAGG	0.512													85	173	---	---	---	---	PASS
ARHGAP28	79822	broad.mit.edu	37	18	6859867	6859867	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:6859867A>T	uc010wzi.1	+	4	404	c.166A>T	c.(166-168)AGT>TGT	p.S56C	ARHGAP28_uc002knc.2_Missense_Mutation_p.S181C|ARHGAP28_uc002knd.2_Missense_Mutation_p.S74C|ARHGAP28_uc002kne.2_Missense_Mutation_p.S74C|ARHGAP28_uc002knf.2_Missense_Mutation_p.S65C			B4DXL2	B4DXL2_HUMAN	SubName: Full=Putative uncharacterized protein ARHGAP28;	56					signal transduction	intracellular				pancreas(1)	1		Colorectal(10;0.168)				TAAAGAAGGGAGTTTTGCGGT	0.438													28	70	---	---	---	---	PASS
ARHGAP28	79822	broad.mit.edu	37	18	6873493	6873493	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:6873493C>T	uc010wzi.1	+	7	747	c.509C>T	c.(508-510)TCT>TTT	p.S170F	ARHGAP28_uc002knc.2_Missense_Mutation_p.S295F|ARHGAP28_uc002knd.2_Missense_Mutation_p.S188F|ARHGAP28_uc002kne.2_Missense_Mutation_p.S188F|ARHGAP28_uc002knf.2_Missense_Mutation_p.S179F			B4DXL2	B4DXL2_HUMAN	SubName: Full=Putative uncharacterized protein ARHGAP28;	170					signal transduction	intracellular				pancreas(1)	1		Colorectal(10;0.168)				CGCCATCTCTCTCTGATTGAA	0.378													30	71	---	---	---	---	PASS
LRRC30	339291	broad.mit.edu	37	18	7231207	7231207	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:7231207G>A	uc010wzk.1	+	1	71	c.71G>A	c.(70-72)AGA>AAA	p.R24K		NM_001105581	NP_001099051	A6NM36	LRC30_HUMAN	leucine rich repeat containing 30	24										ovary(1)|liver(1)	2						ACGGGGAGGAGACAGAAGTTT	0.617													17	26	---	---	---	---	PASS
PTPRM	5797	broad.mit.edu	37	18	8069870	8069870	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:8069870C>T	uc002knn.3	+	8	1822	c.1319C>T	c.(1318-1320)TCA>TTA	p.S440L	PTPRM_uc010dkv.2_Missense_Mutation_p.S440L|PTPRM_uc010wzl.1_Missense_Mutation_p.S227L	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	440	Fibronectin type-III 2.|Extracellular (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)				ACAGAAAACTCACACCCTCAA	0.468													7	18	---	---	---	---	PASS
PTPRM	5797	broad.mit.edu	37	18	8380381	8380381	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:8380381C>T	uc002knn.3	+	27	4338	c.3835C>T	c.(3835-3837)CAC>TAC	p.H1279Y	PTPRM_uc010dkv.2_Missense_Mutation_p.H1292Y|PTPRM_uc010wzl.1_Missense_Mutation_p.H1066Y	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	1279	Tyrosine-protein phosphatase 2.|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)				CCTGGATTATCACTGCACATC	0.453													20	21	---	---	---	---	PASS
PPP4R1	9989	broad.mit.edu	37	18	9550286	9550286	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:9550286G>A	uc002koe.1	-	17	2520	c.2402C>T	c.(2401-2403)TCC>TTC	p.S801F	PPP4R1_uc002kof.2_Missense_Mutation_p.S218F|PPP4R1_uc010wzo.1_Missense_Mutation_p.S647F|PPP4R1_uc002kod.1_Missense_Mutation_p.S784F	NM_001042388	NP_001035847	Q8TF05	PP4R1_HUMAN	protein phosphatase 4, regulatory subunit 1	801	HEAT 13.				protein phosphorylation|signal transduction	protein phosphatase 4 complex	protein binding|protein phosphatase type 4 regulator activity			skin(1)	1						CAACTTGTAGGAAATCCAACG	0.378													32	59	---	---	---	---	PASS
FAM38B	63895	broad.mit.edu	37	18	10680351	10680351	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:10680351C>T	uc002kor.3	-	10	1469	c.1329G>A	c.(1327-1329)CTG>CTA	p.L443L	FAM38B_uc002koq.2_Silent_p.L278L	NM_022068	NP_071351	Q9H5I5	PIEZ2_HUMAN	family with sequence similarity 38, member B	2486						integral to membrane	ion channel activity			ovary(1)	1						CATAATTTTCCAGAAATTGCA	0.378													13	49	---	---	---	---	PASS
SPIRE1	56907	broad.mit.edu	37	18	12506584	12506584	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:12506584C>T	uc002kre.2	-	6	911	c.864G>A	c.(862-864)AAG>AAA	p.K288K	SPIRE1_uc002krc.2_RNA|SPIRE1_uc010wzw.1_Silent_p.K168K|SPIRE1_uc010wzx.1_Silent_p.K91K|SPIRE1_uc010wzy.1_Silent_p.K288K	NM_001128626	NP_001122098	Q08AE8	SPIR1_HUMAN	spire homolog 1 isoform a	288						cytoskeleton|perinuclear region of cytoplasm	actin binding				0						GCTCTTGGACCTTCTTAAGTT	0.433													51	91	---	---	---	---	PASS
SEH1L	81929	broad.mit.edu	37	18	12982531	12982531	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:12982531C>T	uc002krr.2	+	7	914	c.776C>T	c.(775-777)TCC>TTC	p.S259F	SEH1L_uc002krq.2_Missense_Mutation_p.S259F	NM_031216	NP_112493	Q96EE3	SEH1_HUMAN	sec13-like protein isoform 2	259					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						GAACTGACTTCCTCTGGTGGG	0.323													6	35	---	---	---	---	PASS
C18orf1	753	broad.mit.edu	37	18	13621131	13621131	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:13621131C>T	uc002ksa.2	+	5	865	c.197C>T	c.(196-198)GCC>GTC	p.A66V	C18orf1_uc002ksb.2_Missense_Mutation_p.A66V|C18orf1_uc002kse.2_Missense_Mutation_p.A29V|C18orf1_uc002ksf.2_Missense_Mutation_p.A29V|C18orf1_uc002ksg.1_5'UTR|C18orf1_uc002ksh.1_Missense_Mutation_p.A8V|C18orf1_uc002ksi.1_Missense_Mutation_p.A8V	NM_181481	NP_852146	O15165	CR001_HUMAN	hypothetical protein LOC753 isoform alpha 1	66	Helical; (Potential).					integral to membrane|plasma membrane				ovary(2)|skin(1)	3				READ - Rectum adenocarcinoma(73;0.0642)		CTGGAGTTCGCCCAAATCATC	0.592													32	58	---	---	---	---	PASS
RNMT	8731	broad.mit.edu	37	18	13737115	13737115	+	Silent	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:13737115T>C	uc002ksk.1	+	4	727	c.660T>C	c.(658-660)ATT>ATC	p.I220I	RNMT_uc002ksl.1_Silent_p.I220I|RNMT_uc002ksm.1_Silent_p.I220I|RNMT_uc010dlk.2_Silent_p.I220I|RNMT_uc010xae.1_RNA	NM_003799	NP_003790	O43148	MCES_HUMAN	RNA (guanine-7-) methyltransferase	220					mRNA capping|transcription from RNA polymerase II promoter|viral reproduction	nucleoplasm	mRNA (guanine-N7-)-methyltransferase activity|RNA binding				0						AAGGAAGAATTAACAAGCTAG	0.333													26	34	---	---	---	---	PASS
MC2R	4158	broad.mit.edu	37	18	13884700	13884700	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:13884700G>A	uc002ksp.1	-	2	995	c.818C>T	c.(817-819)CCC>CTC	p.P273L		NM_000529	NP_000520	Q01718	ACTHR_HUMAN	melanocortin 2 receptor	273	Helical; Name=7; (By similarity).				G-protein signaling, coupled to cyclic nucleotide second messenger|positive regulation of cAMP biosynthetic process	integral to plasma membrane	corticotropin receptor activity|protein binding			ovary(4)|skin(1)	5					Corticotropin(DB01285)|Cosyntropin(DB01284)	ATATATGAAGGGGTCAATGAC	0.498													24	53	---	---	---	---	PASS
ROCK1	6093	broad.mit.edu	37	18	18533756	18533756	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:18533756G>A	uc002kte.2	-							NM_005406	NP_005397	Q13464	ROCK1_HUMAN	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)					ACTATGTTAAGGAGGAAAAAA	0.279													5	6	---	---	---	---	PASS
ROCK1	6093	broad.mit.edu	37	18	18571194	18571194	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:18571194C>T	uc002kte.2	-	18	3027	c.2086G>A	c.(2086-2088)GCT>ACT	p.A696T		NM_005406	NP_005397	Q13464	ROCK1_HUMAN	Rho-associated, coiled-coil containing protein	696	Glu-rich.|Interaction with FHOD1.				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)					GTTAAACGAGCTTTGGTTACT	0.294													11	51	---	---	---	---	PASS
GATA6	2627	broad.mit.edu	37	18	19780731	19780731	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:19780731C>T	uc002ktt.1	+	7	1998	c.1733C>T	c.(1732-1734)GCC>GTC	p.A578V	GATA6_uc002ktu.1_Missense_Mutation_p.A578V	NM_005257	NP_005248	Q92908	GATA6_HUMAN	GATA binding protein 6	578					blood coagulation|cardiac vascular smooth muscle cell differentiation|cellular response to hypoxia|intestinal epithelial cell differentiation|male gonad development|negative regulation of apoptosis|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor-beta1 production|negative regulation of transforming growth factor-beta2 production|outflow tract septum morphogenesis|positive regulation of angiogenesis|positive regulation of cell cycle arrest|positive regulation of transcription from RNA polymerase II promoter|response to drug|response to growth factor stimulus		protein binding|protein kinase binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(3)	3	all_cancers(21;0.00271)|all_epithelial(16;7.31e-05)|Ovarian(2;0.116)|Lung NSC(20;0.123)|all_lung(20;0.246)		STAD - Stomach adenocarcinoma(5;0.106)			GCCTCGCCGGCCGAAGTCACG	0.672													8	12	---	---	---	---	PASS
GATA6	2627	broad.mit.edu	37	18	19780732	19780732	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:19780732C>T	uc002ktt.1	+	7	1999	c.1734C>T	c.(1732-1734)GCC>GCT	p.A578A	GATA6_uc002ktu.1_Silent_p.A578A	NM_005257	NP_005248	Q92908	GATA6_HUMAN	GATA binding protein 6	578					blood coagulation|cardiac vascular smooth muscle cell differentiation|cellular response to hypoxia|intestinal epithelial cell differentiation|male gonad development|negative regulation of apoptosis|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transforming growth factor-beta1 production|negative regulation of transforming growth factor-beta2 production|outflow tract septum morphogenesis|positive regulation of angiogenesis|positive regulation of cell cycle arrest|positive regulation of transcription from RNA polymerase II promoter|response to drug|response to growth factor stimulus		protein binding|protein kinase binding|sequence-specific DNA binding transcription factor activity|transcription factor binding|transcription regulatory region DNA binding|zinc ion binding			central_nervous_system(3)	3	all_cancers(21;0.00271)|all_epithelial(16;7.31e-05)|Ovarian(2;0.116)|Lung NSC(20;0.123)|all_lung(20;0.246)		STAD - Stomach adenocarcinoma(5;0.106)			CCTCGCCGGCCGAAGTCACGT	0.667													7	12	---	---	---	---	PASS
LAMA3	3909	broad.mit.edu	37	18	21513742	21513742	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:21513742C>T	uc002kuq.2	+						LAMA3_uc002kur.2_Intron|LAMA3_uc002kus.3_Intron|LAMA3_uc002kut.3_Intron	NM_198129	NP_937762	Q16787	LAMA3_HUMAN	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)	TGCTCTTTTTCCAGGTTATCA	0.413													15	25	---	---	---	---	PASS
TTC39C	125488	broad.mit.edu	37	18	21705383	21705383	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:21705383C>T	uc002kuw.2	+						TTC39C_uc002kuu.2_Intron	NM_001135993	NP_001129465	Q8N584	TT39C_HUMAN	tetratricopeptide repeat domain 39C isoform 1								binding			ovary(1)	1						TATTCTGACTCCTTGCAGGCA	0.398													6	31	---	---	---	---	PASS
IMPACT	55364	broad.mit.edu	37	18	22023101	22023101	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:22023101G>A	uc002kvh.3	+	7	691	c.579G>A	c.(577-579)GTG>GTA	p.V193V	IMPACT_uc002kvg.3_Silent_p.V175V	NM_018439	NP_060909	Q9P2X3	IMPCT_HUMAN	Impact homolog	193											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)					TGGCTCCAGTGGTTTGTCCCA	0.363													20	43	---	---	---	---	PASS
IMPACT	55364	broad.mit.edu	37	18	22023102	22023102	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:22023102G>A	uc002kvh.3	+	7	692	c.580G>A	c.(580-582)GTT>ATT	p.V194I	IMPACT_uc002kvg.3_Missense_Mutation_p.V176I	NM_018439	NP_060909	Q9P2X3	IMPCT_HUMAN	Impact homolog	194											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)					GGCTCCAGTGGTTTGTCCCAA	0.363													20	43	---	---	---	---	PASS
ZNF521	25925	broad.mit.edu	37	18	22806088	22806088	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:22806088C>T	uc002kvk.2	-	4	2041	c.1794G>A	c.(1792-1794)GGG>GGA	p.G598G	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Silent_p.G598G|ZNF521_uc002kvl.2_Silent_p.G378G	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	598					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)					TGGATTTCTTCCCATTGTGGA	0.453			T	PAX5	ALL								8	25	---	---	---	---	PASS
ZNF521	25925	broad.mit.edu	37	18	22806243	22806243	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:22806243G>A	uc002kvk.2	-	4	1886	c.1639C>T	c.(1639-1641)CCA>TCA	p.P547S	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.P547S|ZNF521_uc002kvl.2_Missense_Mutation_p.P327S	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	547					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)					CCAAGCACTGGAGACCCAAAT	0.443			T	PAX5	ALL								17	50	---	---	---	---	PASS
ZNF521	25925	broad.mit.edu	37	18	22807069	22807069	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:22807069T>A	uc002kvk.2	-	4	1060	c.813A>T	c.(811-813)GAA>GAT	p.E271D	ZNF521_uc010xbe.1_RNA|ZNF521_uc010dly.2_Missense_Mutation_p.E271D|ZNF521_uc002kvl.2_Missense_Mutation_p.E51D	NM_015461	NP_056276	Q96K83	ZN521_HUMAN	zinc finger protein 521	271					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)					TTGGGGAGCATTCGGGGTGGC	0.547			T	PAX5	ALL								12	48	---	---	---	---	PASS
AQP4	361	broad.mit.edu	37	18	24436323	24436323	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:24436323C>T	uc002kwa.2	-	5	887	c.824G>A	c.(823-825)GGA>GAA	p.G275E	AQP4_uc002kvz.2_Missense_Mutation_p.G253E	NM_001650	NP_001641	P55087	AQP4_HUMAN	aquaporin 4 isoform a	275	Cytoplasmic (Potential).				cellular response to interferon-gamma|excretion|nervous system development	cytoplasm|external side of plasma membrane|integral to plasma membrane	water channel activity				0	all_cancers(21;0.0172)|Lung NSC(5;0.00299)|all_lung(6;0.00747)|Ovarian(20;0.124)					CATGTAGCTTCCTTTTGTTTG	0.488													38	81	---	---	---	---	PASS
CDH2	1000	broad.mit.edu	37	18	25568577	25568577	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:25568577C>T	uc002kwg.2	-	11	2111	c.1652G>A	c.(1651-1653)GGA>GAA	p.G551E	CDH2_uc010xbn.1_Missense_Mutation_p.G520E	NM_001792	NP_001783	P19022	CADH2_HUMAN	cadherin 2, type 1 preproprotein	551	Extracellular (Potential).|Cadherin 4.				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						AGTTATTTGTCCATTCACAGG	0.308													9	16	---	---	---	---	PASS
TTR	7276	broad.mit.edu	37	18	29178598	29178598	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:29178598C>T	uc002kwx.3	+	4	540	c.404C>T	c.(403-405)TCC>TTC	p.S135F		NM_000371	NP_000362	P02766	TTHY_HUMAN	transthyretin precursor	135	Thyroid hormone binding.				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)	AGCCCCTACTCCTATTCCACC	0.557													15	35	---	---	---	---	PASS
TTR	7276	broad.mit.edu	37	18	29178599	29178599	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:29178599C>T	uc002kwx.3	+	4	541	c.405C>T	c.(403-405)TCC>TCT	p.S135S		NM_000371	NP_000362	P02766	TTHY_HUMAN	transthyretin precursor	135	Thyroid hormone binding.				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)	GCCCCTACTCCTATTCCACCA	0.552													15	33	---	---	---	---	PASS
B4GALT6	9331	broad.mit.edu	37	18	29206995	29206995	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:29206995C>T	uc002kwz.3	-	7	1163	c.866G>A	c.(865-867)GGA>GAA	p.G289E	B4GALT6_uc010dma.2_Missense_Mutation_p.G250E|B4GALT6_uc010dmb.2_Missense_Mutation_p.G250E|B4GALT6_uc002kwy.3_5'Flank	NM_004775	NP_004766	Q9UBX8	B4GT6_HUMAN	beta-1,4-galactosyltransferase 6	289	Lumenal (Potential).				post-translational protein modification|protein N-linked glycosylation via asparagine	Golgi cisterna membrane|integral to membrane	metal ion binding				0			OV - Ovarian serous cystadenocarcinoma(10;0.00791)			TCCTCCCCATCCCCAGAAGGC	0.338													12	36	---	---	---	---	PASS
FAM59A	64762	broad.mit.edu	37	18	29850233	29850233	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:29850233C>T	uc002kxl.2	-	5	1736	c.1680G>A	c.(1678-1680)CAG>CAA	p.Q560Q	FAM59A_uc002kxk.1_Silent_p.Q560Q	NM_022751	NP_073588	Q9H706	FA59A_HUMAN	family with sequence similarity 59, member A	560	Pro-rich.									ovary(1)|skin(1)	2						GAGAGCGAGTCTGTTGCCGCG	0.592													5	15	---	---	---	---	PASS
KLHL14	57565	broad.mit.edu	37	18	30275436	30275436	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:30275436C>T	uc002kxm.1	-	4	1537	c.1149G>A	c.(1147-1149)TGG>TGA	p.W383*	KLHL14_uc010dmd.1_5'UTR	NM_020805	NP_065856	Q9P2G3	KLH14_HUMAN	kelch-like 14	383	Kelch 2.					cytosol|endoplasmic reticulum membrane				ovary(1)	1						CATTCGGATTCCACTGGTCCT	0.413													9	15	---	---	---	---	PASS
C18orf34	374864	broad.mit.edu	37	18	30795606	30795606	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:30795606C>T	uc002kxn.2	-	18	2128	c.1986G>A	c.(1984-1986)ATG>ATA	p.M662I	C18orf34_uc010dme.1_Missense_Mutation_p.M176I|C18orf34_uc010xbr.1_Missense_Mutation_p.M662I|C18orf34_uc010dmf.1_Intron|C18orf34_uc002kxo.2_Missense_Mutation_p.M624I|C18orf34_uc002kxp.2_Missense_Mutation_p.M662I	NM_001105528	NP_001098998	Q5BJE1	CR034_HUMAN	hypothetical protein LOC374864 isoform 1	662	Potential.									ovary(1)	1						CATAAAAAATCATTGTCTTAC	0.254													8	25	---	---	---	---	PASS
C18orf34	374864	broad.mit.edu	37	18	30873188	30873188	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:30873188C>T	uc002kxn.2	-	11	1253	c.1111G>A	c.(1111-1113)GAA>AAA	p.E371K	C18orf34_uc010xbr.1_Missense_Mutation_p.E371K|C18orf34_uc010dmf.1_Intron|C18orf34_uc002kxo.2_Missense_Mutation_p.E371K|C18orf34_uc002kxp.2_Missense_Mutation_p.E371K	NM_001105528	NP_001098998	Q5BJE1	CR034_HUMAN	hypothetical protein LOC374864 isoform 1	371	Potential.									ovary(1)	1						TCAGTCACTTCCTCTTCCTTC	0.289													10	24	---	---	---	---	PASS
MOCOS	55034	broad.mit.edu	37	18	33800185	33800185	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:33800185G>A	uc002kzq.3	+							NM_017947	NP_060417	Q96EN8	MOCOS_HUMAN	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)	CCAAAGGTGGGAAAACTGCTT	0.433													14	22	---	---	---	---	PASS
SYT4	6860	broad.mit.edu	37	18	40850610	40850610	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:40850610G>A	uc002law.2	-	4	1343	c.974C>T	c.(973-975)CCC>CTC	p.P325L	SYT4_uc010dng.2_RNA|SYT4_uc010xcm.1_Missense_Mutation_p.P307L|SYT4_uc010dnh.2_Intron	NM_020783	NP_065834	Q9H2B2	SYT4_HUMAN	synaptotagmin IV	325	C2 2.|Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	transporter activity			skin(5)	5						TTTGACATAGGGATCTGCAGT	0.443													13	43	---	---	---	---	PASS
SYT4	6860	broad.mit.edu	37	18	40854007	40854007	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:40854007C>T	uc002law.2	-	2	756	c.387G>A	c.(385-387)GGG>GGA	p.G129G	SYT4_uc010dng.2_Intron|SYT4_uc010xcm.1_Silent_p.G111G|SYT4_uc010dnh.2_Intron	NM_020783	NP_065834	Q9H2B2	SYT4_HUMAN	synaptotagmin IV	129	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	transporter activity			skin(5)	5						ACTCTTTTTCCCCTTCTAAAA	0.433													15	45	---	---	---	---	PASS
SYT4	6860	broad.mit.edu	37	18	40854008	40854008	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:40854008C>T	uc002law.2	-	2	755	c.386G>A	c.(385-387)GGG>GAG	p.G129E	SYT4_uc010dng.2_Intron|SYT4_uc010xcm.1_Missense_Mutation_p.G111E|SYT4_uc010dnh.2_Intron	NM_020783	NP_065834	Q9H2B2	SYT4_HUMAN	synaptotagmin IV	129	Cytoplasmic (Potential).					cell junction|integral to membrane|synaptic vesicle membrane	transporter activity			skin(5)	5						CTCTTTTTCCCCTTCTAAAAA	0.438													16	45	---	---	---	---	PASS
RNF165	494470	broad.mit.edu	37	18	44027630	44027630	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:44027630C>T	uc002lcb.1	+	4	641	c.590C>T	c.(589-591)CCC>CTC	p.P197L	RNF165_uc002lby.1_Missense_Mutation_p.P130L|RNF165_uc010dnn.1_5'UTR	NM_152470	NP_689683	Q6ZSG1	RN165_HUMAN	ring finger protein 165	197							zinc ion binding				0				READ - Rectum adenocarcinoma(1;0.0873)		CACCACTTTCCCAGAAACTCC	0.572													37	80	---	---	---	---	PASS
MYO5B	4645	broad.mit.edu	37	18	47404178	47404178	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:47404178G>A	uc002leb.2	-	25	3639	c.3351C>T	c.(3349-3351)TCC>TCT	p.S1117S	MYO5B_uc002lea.2_Silent_p.S258S	NM_001080467	NP_001073936	Q9ULV0	MYO5B_HUMAN	myosin VB	1117	Potential.				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)		TCTCAGATGTGGAGATGGAGG	0.502													17	34	---	---	---	---	PASS
MAPK4	5596	broad.mit.edu	37	18	48241502	48241502	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:48241502C>T	uc002lev.2	+	3	1600	c.600C>T	c.(598-600)CTC>CTT	p.L200L	MAPK4_uc010xdm.1_5'UTR|MAPK4_uc010doz.2_Silent_p.L200L	NM_002747	NP_002738	P31152	MK04_HUMAN	mitogen-activated protein kinase 4	200	Protein kinase.				cell cycle		ATP binding|MAP kinase activity			lung(4)|skin(2)	6		Colorectal(6;0.0297)		Colorectal(21;0.156)		CACGACTGCTCCTTTCCCCCA	0.502													9	42	---	---	---	---	PASS
DCC	1630	broad.mit.edu	37	18	50432545	50432545	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:50432545C>T	uc002lfe.1	+	3	1131	c.544C>T	c.(544-546)CCA>TCA	p.P182S	DCC_uc010xdr.1_Missense_Mutation_p.P30S	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	182	Extracellular (Potential).|Ig-like C2-type 2.				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)		AGACCTGACTCCAATCCCAGG	0.547													21	47	---	---	---	---	PASS
DCC	1630	broad.mit.edu	37	18	50432550	50432550	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:50432550C>T	uc002lfe.1	+	3	1136	c.549C>T	c.(547-549)ATC>ATT	p.I183I	DCC_uc010xdr.1_Silent_p.I31I	NM_005215	NP_005206	P43146	DCC_HUMAN	netrin receptor DCC precursor	183	Extracellular (Potential).|Ig-like C2-type 2.				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)		TGACTCCAATCCCAGGTGACT	0.542													28	39	---	---	---	---	PASS
RAB27B	5874	broad.mit.edu	37	18	52546600	52546600	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:52546600G>A	uc002lfr.2	+	3	265	c.154G>A	c.(154-156)GTT>ATT	p.V52I		NM_004163	NP_004154	O00194	RB27B_HUMAN	RAB27B, member RAS oncogene family	52					protein transport|small GTPase mediated signal transduction	Golgi apparatus|plasma membrane	GTP binding|GTPase activity				0				Colorectal(16;0.0273)|READ - Rectum adenocarcinoma(59;0.219)		TATCTTTCAGGTTTATAATGC	0.388													23	40	---	---	---	---	PASS
WDR7	23335	broad.mit.edu	37	18	54424311	54424311	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:54424311C>T	uc002lgk.1	+	15	2698	c.2487C>T	c.(2485-2487)CCC>CCT	p.P829P	WDR7_uc010dpk.1_RNA|WDR7_uc002lgl.1_Silent_p.P829P	NM_015285	NP_056100	Q9Y4E6	WDR7_HUMAN	rabconnectin-3 beta isoform 1	829										ovary(2)|skin(1)	3				Lung(128;0.0238)|Colorectal(16;0.0296)		TGCTGAAACCCCACTGCACCG	0.493													17	68	---	---	---	---	PASS
ST8SIA3	51046	broad.mit.edu	37	18	55024414	55024414	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:55024414C>T	uc002lgn.2	+	3	930	c.573C>T	c.(571-573)TTC>TTT	p.F191F		NM_015879	NP_056963	O43173	SIA8C_HUMAN	ST8 alpha-N-acetyl-neuraminide	191	Lumenal (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)		GTTGCAATTTCGCCCCTACGG	0.403													17	38	---	---	---	---	PASS
ST8SIA3	51046	broad.mit.edu	37	18	55024568	55024568	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:55024568C>T	uc002lgn.2	+	3	1084	c.727C>T	c.(727-729)CTT>TTT	p.L243F		NM_015879	NP_056963	O43173	SIA8C_HUMAN	ST8 alpha-N-acetyl-neuraminide	243	Lumenal (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)		CGGGGCCATTCTTTGGATCCC	0.413													11	29	---	---	---	---	PASS
ATP8B1	5205	broad.mit.edu	37	18	55398971	55398971	+	Silent	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:55398971G>T	uc002lgw.2	-	1	69	c.69C>A	c.(67-69)CCC>CCA	p.P23P	uc002lgv.1_RNA	NM_005603	NP_005594	O43520	AT8B1_HUMAN	ATPase, class I, type 8B, member 1	23	Cytoplasmic (Potential).				ATP biosynthetic process|bile acid and bile salt transport|negative regulation of transcription, DNA-dependent	apical plasma membrane|integral to plasma membrane|membrane fraction	ATP binding|ATPase activity, coupled to transmembrane movement of ions, phosphorylative mechanism|magnesium ion binding|phospholipid-translocating ATPase activity			breast(5)|ovary(2)|central_nervous_system(2)|lung(1)	10		Colorectal(73;0.229)				CATCACTGTAGGGAACCACTT	0.463									Byler_disease				5	126	---	---	---	---	PASS
NEDD4L	23327	broad.mit.edu	37	18	55992303	55992303	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:55992303C>T	uc002lgy.2	+	9	863	c.589C>T	c.(589-591)CCC>TCC	p.P197S	NEDD4L_uc002lgz.2_Missense_Mutation_p.P197S|NEDD4L_uc002lgx.2_Missense_Mutation_p.P197S|NEDD4L_uc010xee.1_Missense_Mutation_p.P76S|NEDD4L_uc002lhc.2_Missense_Mutation_p.P189S|NEDD4L_uc002lhd.2_Missense_Mutation_p.P76S|NEDD4L_uc002lhb.2_Missense_Mutation_p.P76S|NEDD4L_uc002lhe.2_Missense_Mutation_p.P189S|NEDD4L_uc002lhf.2_Missense_Mutation_p.P76S|NEDD4L_uc002lhg.2_Missense_Mutation_p.P76S|NEDD4L_uc002lhh.2_Missense_Mutation_p.P76S|NEDD4L_uc010dpm.1_Missense_Mutation_p.P48S	NM_001144967	NP_001138439	Q96PU5	NED4L_HUMAN	neural precursor cell expressed, developmentally	197	WW 1.				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						TCCTCTGCCTCCCGGGTGGGA	0.507													41	129	---	---	---	---	PASS
ALPK2	115701	broad.mit.edu	37	18	56203022	56203022	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:56203022C>T	uc002lhj.3	-	5	4611	c.4397G>A	c.(4396-4398)AGA>AAA	p.R1466K	ALPK2_uc002lhk.1_Missense_Mutation_p.R797K	NM_052947	NP_443179	Q86TB3	ALPK2_HUMAN	heart alpha-kinase	1466							ATP binding|protein serine/threonine kinase activity			ovary(7)|skin(5)|lung(1)|central_nervous_system(1)	14						TCTGCTGATTCTATTTTCACT	0.498													18	44	---	---	---	---	PASS
MC4R	4160	broad.mit.edu	37	18	58038584	58038584	+	Silent	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:58038584T>C	uc002lie.1	-	1	1418	c.999A>G	c.(997-999)TAA>TAG	p.*333*		NM_005912	NP_005903	P32245	MC4R_HUMAN	melanocortin 4 receptor	333					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)				CTGTCCCCATTTAATATCTGC	0.428													31	59	---	---	---	---	PASS
KIAA1468	57614	broad.mit.edu	37	18	59947641	59947641	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:59947641C>T	uc002lil.2	+	23	3231	c.3016C>T	c.(3016-3018)CCG>TCG	p.P1006S	KIAA1468_uc010xel.1_Intron|KIAA1468_uc002lim.2_Intron	NM_020854	NP_065905	Q9P260	K1468_HUMAN	hypothetical protein LOC57614	1006	HEAT 3.						binding			ovary(2)|breast(2)|upper_aerodigestive_tract(1)|large_intestine(1)	6		Colorectal(73;0.186)				GCGGGTTGCTCCGGCCCTTGT	0.443													7	51	---	---	---	---	PASS
SERPINB12	89777	broad.mit.edu	37	18	61233932	61233932	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:61233932C>T	uc010xen.1	+	7	906	c.906C>T	c.(904-906)TTC>TTT	p.F302F	SERPINB12_uc010xeo.1_Silent_p.F322F	NM_080474	NP_536722	Q96P63	SPB12_HUMAN	serine (or cysteine) proteinase inhibitor, clade	302					negative regulation of protein catabolic process|regulation of proteolysis	cytoplasm	enzyme binding|serine-type endopeptidase inhibitor activity				0						TCCCCCGGTTCACCCTGGAAG	0.448													73	110	---	---	---	---	PASS
SERPINB11	89778	broad.mit.edu	37	18	61387384	61387384	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:61387384A>G	uc002ljk.3	+	7	675	c.613A>G	c.(613-615)AGT>GGT	p.S205G	SERPINB11_uc010xes.1_Missense_Mutation_p.S30G|SERPINB11_uc010dqd.2_Missense_Mutation_p.S91G|SERPINB11_uc002ljj.3_Missense_Mutation_p.S91G|SERPINB11_uc010dqe.2_Intron|SERPINB11_uc010dqf.2_Intron	NM_080475	NP_536723	Q96P15	SPB11_HUMAN	serpin peptidase inhibitor, clade B, member 11	205					regulation of proteolysis	cytoplasm	serine-type endopeptidase inhibitor activity			breast(1)	1		Esophageal squamous(42;0.129)				TTTTCAGCTAAGTGAGGTAAG	0.318													10	16	---	---	---	---	PASS
SERPINB2	5055	broad.mit.edu	37	18	61570516	61570516	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:61570516T>A	uc010xeu.1	+	9	1558	c.1225T>A	c.(1225-1227)TTC>ATC	p.F409I	SERPINB2_uc002ljo.2_Missense_Mutation_p.F409I|SERPINB2_uc010dqh.2_Missense_Mutation_p.F339I|SERPINB2_uc002ljp.1_Intron|SERPINB2_uc002ljq.1_Intron	NM_001143818	NP_001137290	P05120	PAI2_HUMAN	serine (or cysteine) proteinase inhibitor, clade	409					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)	CATTTTATTTTTCGGCAGATT	0.393													24	38	---	---	---	---	PASS
CDH7	1005	broad.mit.edu	37	18	63511245	63511245	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:63511245G>A	uc002ljz.2	+	7	1504	c.1179G>A	c.(1177-1179)GGG>GGA	p.G393G	CDH7_uc002lka.2_Silent_p.G393G|CDH7_uc002lkb.2_Silent_p.G393G	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	393	Extracellular (Potential).|Cadherin 4.				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)				CCCAGGTTGGGAATATCATTG	0.448													25	65	---	---	---	---	PASS
CDH7	1005	broad.mit.edu	37	18	63547737	63547737	+	Silent	SNP	C	T	T	rs116347805	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:63547737C>T	uc002ljz.2	+	12	2290	c.1965C>T	c.(1963-1965)GAC>GAT	p.D655D	CDH7_uc002lkb.2_Silent_p.D655D	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	655	Cytoplasmic (Potential).				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)				GATACGATGACGAGGGCGGGG	0.493													14	23	---	---	---	---	PASS
CDH7	1005	broad.mit.edu	37	18	63548017	63548017	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:63548017G>A	uc002ljz.2	+	12	2570	c.2245G>A	c.(2245-2247)GAT>AAT	p.D749N	CDH7_uc002lkb.2_Missense_Mutation_p.D749N	NM_033646	NP_387450	Q9ULB5	CADH7_HUMAN	cadherin 7, type 2 preproprotein	749	Cytoplasmic (Potential).				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)				CAGCTCTTTAGATTCCATCAG	0.473													31	42	---	---	---	---	PASS
CDH19	28513	broad.mit.edu	37	18	64211222	64211222	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:64211222C>T	uc002lkc.1	-	7	1338	c.1200G>A	c.(1198-1200)AGG>AGA	p.R400R	CDH19_uc010dql.1_RNA|CDH19_uc010xey.1_Silent_p.R400R|CDH19_uc002lkd.2_Silent_p.R400R	NM_021153	NP_066976	Q9H159	CAD19_HUMAN	cadherin 19, type 2 preproprotein	400	Cadherin 4.|Extracellular (Potential).				homophilic cell adhesion	integral to membrane|plasma membrane	calcium ion binding			ovary(1)|skin(1)	2		Esophageal squamous(42;0.0132)				TAGGAGATTTCCTATTGTCTG	0.323													9	35	---	---	---	---	PASS
CD226	10666	broad.mit.edu	37	18	67562970	67562970	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:67562970C>T	uc010dqo.2	-	3	1141	c.694G>A	c.(694-696)GAA>AAA	p.E232K	CD226_uc002lkm.3_Missense_Mutation_p.E232K	NM_006566	NP_006557	Q15762	CD226_HUMAN	CD226 molecule precursor	232	Ig-like C2-type 2.|Extracellular (Potential).				cell adhesion|cell recognition|positive regulation of Fc receptor mediated stimulatory signaling pathway|positive regulation of immunoglobulin mediated immune response|positive regulation of mast cell activation|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target	cell surface|integral to plasma membrane|membrane raft	cell adhesion molecule binding|integrin binding|protein kinase binding|receptor activity				0		Esophageal squamous(42;0.129)				ACGAAGGTTTCGTTTTCTCCT	0.562													38	89	---	---	---	---	PASS
NETO1	81832	broad.mit.edu	37	18	70417313	70417313	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:70417313C>T	uc002lkw.2	-	9	1809	c.1525G>A	c.(1525-1527)GAT>AAT	p.D509N	NETO1_uc002lkx.1_Missense_Mutation_p.D508N|NETO1_uc002lky.1_Missense_Mutation_p.D509N	NM_138966	NP_620416	Q8TDF5	NETO1_HUMAN	neuropilin- and tolloid-like protein 1 isoform 3	509	Cytoplasmic (Potential).				memory|regulation of long-term neuronal synaptic plasticity|visual learning	cell junction|excitatory synapse|extracellular region|integral to membrane|postsynaptic density|postsynaptic membrane	receptor activity			ovary(2)|skin(2)	4		Esophageal squamous(42;0.129)		READ - Rectum adenocarcinoma(1;0.0487)		ACGGCTTTATCGTGTCTGGAC	0.438													18	28	---	---	---	---	PASS
NETO1	81832	broad.mit.edu	37	18	70532042	70532042	+	Splice_Site	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:70532042C>T	uc002lkw.2	-	3	504	c.220_splice	c.e3+1	p.A74_splice	NETO1_uc002lkx.1_Splice_Site_p.A73_splice|NETO1_uc002lky.1_Splice_Site_p.A74_splice|NETO1_uc002lkz.2_Splice_Site_p.A73_splice	NM_138966	NP_620416	Q8TDF5	NETO1_HUMAN	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)		TCTCCCCTTACCTTCTATGAT	0.448													12	33	---	---	---	---	PASS
ZNF516	9658	broad.mit.edu	37	18	74091512	74091512	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:74091512G>A	uc010dqx.1	-	3	2793	c.2558C>T	c.(2557-2559)CCC>CTC	p.P853L	ZNF516_uc002lme.2_RNA|ZNF516_uc002lmd.2_RNA	NM_014643	NP_055458	Q92618	ZN516_HUMAN	zinc finger protein 516	853					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)		CACTCCCAGGGGAGAAGAGCC	0.627													19	34	---	---	---	---	PASS
MBP	4155	broad.mit.edu	37	18	74728762	74728762	+	Intron	SNP	A	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:74728762A>C	uc010xfd.1	-						MBP_uc002lml.2_Intron|MBP_uc002lmn.2_Intron|MBP_uc002lmp.2_Intron|MBP_uc010xfe.1_Intron|MBP_uc002lmr.2_3'UTR	NM_001025101	NP_001020272	P02686	MBP_HUMAN	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)		ATTTAAACTAAAACTCCTCTA	0.532													5	13	---	---	---	---	PASS
SALL3	27164	broad.mit.edu	37	18	76754623	76754623	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:76754623G>A	uc002lmt.2	+	2	2632	c.2632G>A	c.(2632-2634)GAC>AAC	p.D878N	SALL3_uc010dra.2_Missense_Mutation_p.D485N	NM_171999	NP_741996	Q9BXA9	SALL3_HUMAN	sal-like 3	878					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|large_intestine(1)|central_nervous_system(1)	4		Esophageal squamous(42;0.129)|Melanoma(33;0.16)|Prostate(75;0.167)		OV - Ovarian serous cystadenocarcinoma(15;4.69e-06)|BRCA - Breast invasive adenocarcinoma(31;0.0256)		CCTGAGCAACGACTCCTCGTC	0.687													14	21	---	---	---	---	PASS
ATP9B	374868	broad.mit.edu	37	18	76870348	76870348	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:76870348C>T	uc002lmx.2	+						ATP9B_uc002lmv.1_Intron|ATP9B_uc002lmw.1_Intron|ATP9B_uc002lmy.1_Intron|ATP9B_uc002lmz.1_5'Flank|ATP9B_uc002lmu.2_Intron	NM_198531	NP_940933	O43861	ATP9B_HUMAN	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)		TCTTTTGTTTCATACAGTTGC	0.318													7	26	---	---	---	---	PASS
ATP9B	374868	broad.mit.edu	37	18	76870492	76870492	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:76870492C>T	uc002lmx.2	+	3	445	c.431C>T	c.(430-432)ACC>ATC	p.T144I	ATP9B_uc002lmv.1_RNA|ATP9B_uc002lmw.1_Missense_Mutation_p.T144I|ATP9B_uc002lmy.1_RNA|ATP9B_uc002lmz.1_5'Flank|ATP9B_uc002lmu.2_Missense_Mutation_p.T144I	NM_198531	NP_940933	O43861	ATP9B_HUMAN	ATPase, class II, type 9B	144	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)		AATGTGTTTACCTTTATACCT	0.408													18	21	---	---	---	---	PASS
NFATC1	4772	broad.mit.edu	37	18	77211800	77211800	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:77211800C>T	uc010xfg.1	+	6	2340	c.1887C>T	c.(1885-1887)TTC>TTT	p.F629F	NFATC1_uc002lnc.1_Silent_p.F629F|NFATC1_uc010xff.1_Missense_Mutation_p.S601L|NFATC1_uc002lnd.2_Silent_p.F629F|NFATC1_uc002lne.2_Silent_p.F157F|NFATC1_uc010xfh.1_Silent_p.F629F|NFATC1_uc010xfi.1_Silent_p.F616F|NFATC1_uc010xfj.1_Silent_p.F157F|NFATC1_uc002lnf.2_Silent_p.F616F|NFATC1_uc002lng.2_Silent_p.F616F|NFATC1_uc010xfk.1_Silent_p.F616F	NM_006162	NP_006153	O95644	NFAC1_HUMAN	nuclear factor of activated T-cells, cytosolic	629					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)		AGGTCATTTTCGTGGAGAAAG	0.622													22	48	---	---	---	---	PASS
C18orf22	79863	broad.mit.edu	37	18	77805900	77805900	+	Silent	SNP	C	T	T	rs148332133		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:77805900C>T	uc002lns.2	+	7	915	c.777C>T	c.(775-777)CTC>CTT	p.L259L	C18orf22_uc010drh.2_Missense_Mutation_p.S231L|C18orf22_uc010dri.1_Intron|C18orf22_uc002lnt.2_Silent_p.L92L|uc002lnu.2_5'Flank	NM_024805	NP_079081	Q8N0V3	RBFA_HUMAN	hypothetical protein LOC79863 precursor	259					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)		ATAAAGGGCTCGGGGGCCTGG	0.582													21	42	---	---	---	---	PASS
HCN2	610	broad.mit.edu	37	19	608089	608089	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:608089G>A	uc002lpe.2	+	4	1397	c.1344G>A	c.(1342-1344)ATG>ATA	p.M448I		NM_001194	NP_001185	Q9UL51	HCN2_HUMAN	hyperpolarization activated cyclic	448	Helical; Name=Segment S6; (Potential).				cell-cell signaling|muscle contraction	voltage-gated potassium channel complex	cAMP binding|protein binding|sodium channel activity|voltage-gated potassium channel activity				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)		TGCTCAGCATGATTGTGGGTG	0.627													12	31	---	---	---	---	PASS
GRIN3B	116444	broad.mit.edu	37	19	1004824	1004824	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:1004824G>A	uc002lqo.1	+	3	1324	c.1324G>A	c.(1324-1326)GGG>AGG	p.G442R		NM_138690	NP_619635	O60391	NMD3B_HUMAN	glutamate receptor, ionotropic,	442	Extracellular (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)	GTGCCCAGCGGGGCAGCTGTG	0.667													12	12	---	---	---	---	PASS
AP3D1	8943	broad.mit.edu	37	19	2102253	2102253	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:2102253G>A	uc002luz.2	-	30	3604	c.3381C>T	c.(3379-3381)GTC>GTT	p.V1127V	AP3D1_uc010dsv.2_Silent_p.V217V|AP3D1_uc002luy.2_Silent_p.V1086V|AP3D1_uc002lva.2_Silent_p.V1189V	NM_003938	NP_003929	O14617	AP3D1_HUMAN	adaptor-related protein complex 3, delta 1	1127					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)		CGTCGACTGAGACAGAGTTCT	0.403													28	45	---	---	---	---	PASS
AP3D1	8943	broad.mit.edu	37	19	2102276	2102276	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:2102276G>A	uc002luz.2	-						AP3D1_uc010dsv.2_Intron|AP3D1_uc002luy.2_Intron|AP3D1_uc002lva.2_Intron	NM_003938	NP_003929	O14617	AP3D1_HUMAN	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)		CCCTGTGTAAGGAAAAAAGAT	0.323													21	42	---	---	---	---	PASS
AP3D1	8943	broad.mit.edu	37	19	2121814	2121814	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:2121814G>A	uc002luz.2	-	12	1243	c.1020C>T	c.(1018-1020)TCC>TCT	p.S340S	AP3D1_uc002luy.2_Silent_p.S249S|AP3D1_uc002lva.2_Silent_p.S340S	NM_003938	NP_003929	O14617	AP3D1_HUMAN	adaptor-related protein complex 3, delta 1	340	HEAT 7.				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)		GGTCCTTGTGGGACTGCACGG	0.637													21	53	---	---	---	---	PASS
SLC39A3	29985	broad.mit.edu	37	19	2733004	2733004	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:2733004G>A	uc002lwg.2	-	3	944	c.690C>T	c.(688-690)GCC>GCT	p.A230A	SLC39A3_uc010xgy.1_Silent_p.A230A	NM_144564	NP_653165	Q9BRY0	S39A3_HUMAN	solute carrier family 39 (zinc transporter),	230	Helical; (Potential).					integral to membrane|plasma membrane	zinc ion transmembrane 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)		CCGCCAGCTTGGCCGCGTCCC	0.721													5	10	---	---	---	---	PASS
THOP1	7064	broad.mit.edu	37	19	2799764	2799764	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:2799764C>T	uc002lwj.2	+	5	719	c.564C>T	c.(562-564)TTC>TTT	p.F188F	THOP1_uc010xgz.1_Silent_p.F67F	NM_003249	NP_003240	P52888	THOP1_HUMAN	thimet oligopeptidase 1	188					proteolysis	cytoplasm	metal ion binding|metalloendopeptidase activity|protein binding			ovary(2)|central_nervous_system(1)	3				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ACACGACCTTCCTGCCCTTCA	0.617													10	35	---	---	---	---	PASS
ZNF77	58492	broad.mit.edu	37	19	2934407	2934407	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:2934407G>A	uc002lws.3	-	4	849	c.718C>T	c.(718-720)CAT>TAT	p.H240Y		NM_021217	NP_067040	Q15935	ZNF77_HUMAN	zinc finger protein 77	240	C2H2-type 2.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	cytoplasm|nucleolus	DNA binding|zinc ion binding			ovary(1)	1				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|GBM - Glioblastoma multiforme(1328;2.11e-07)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|Lung(535;0.174)|STAD - Stomach adenocarcinoma(1328;0.18)		TTACATGCATGGGTTTTCTGC	0.418													12	16	---	---	---	---	PASS
TBXA2R	6915	broad.mit.edu	37	19	3600403	3600403	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:3600403C>T	uc002lyg.1	-	2	444	c.230G>A	c.(229-231)GGG>GAG	p.G77E	TBXA2R_uc002lye.1_Missense_Mutation_p.G77E	NM_001060	NP_001051	P21731	TA2R_HUMAN	thromboxane A2 receptor isoform alpha	77	Helical; Name=2; (Potential).				platelet activation	integral to plasma membrane	guanyl-nucleotide exchange factor activity|protein binding|thromboxane A2 receptor activity				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)	Ridogrel(DB01207)	CACCAGCAGCCCCAGGAAGTC	0.701													6	14	---	---	---	---	PASS
ATCAY	85300	broad.mit.edu	37	19	3905454	3905454	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:3905454C>T	uc002lyy.3	+	4	589	c.159C>T	c.(157-159)TTC>TTT	p.F53F	ATCAY_uc010xhz.1_Silent_p.F59F	NM_033064	NP_149053	Q86WG3	ATCAY_HUMAN	caytaxin	53					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)		CGCTAAATTTCAACGGAGCGC	0.488													5	19	---	---	---	---	PASS
ANKRD24	170961	broad.mit.edu	37	19	4219746	4219746	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:4219746G>A	uc010dtt.1	+	19	3438	c.3162G>A	c.(3160-3162)AAG>AAA	p.K1054K		NM_133475	NP_597732	Q8TF21	ANR24_HUMAN	ankyrin repeat domain 24	1054	Potential.										0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0233)|STAD - Stomach adenocarcinoma(1328;0.181)		CCAAGGAGAAGGACAAGAAGG	0.562													6	16	---	---	---	---	PASS
ANKRD24	170961	broad.mit.edu	37	19	4219747	4219747	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:4219747G>A	uc010dtt.1	+	19	3439	c.3163G>A	c.(3163-3165)GAC>AAC	p.D1055N		NM_133475	NP_597732	Q8TF21	ANR24_HUMAN	ankyrin repeat domain 24	1055	Potential.										0				UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.0233)|STAD - Stomach adenocarcinoma(1328;0.181)		CAAGGAGAAGGACAAGAAGGT	0.557													6	17	---	---	---	---	PASS
PLIN4	729359	broad.mit.edu	37	19	4511781	4511781	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:4511781C>T	uc002mar.1	-	3	2149	c.2149G>A	c.(2149-2151)GAC>AAC	p.D717N	PLIN4_uc010dub.1_5'Flank	NM_001080400	NP_001073869	Q96Q06	PLIN4_HUMAN	plasma membrane associated protein, S3-12	717	19.|27 X 33 AA approximate tandem repeat.					lipid particle|plasma membrane					0						CAGACGGTGTCCTTGGTACCA	0.577													42	209	---	---	---	---	PASS
DPP9	91039	broad.mit.edu	37	19	4683648	4683648	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:4683648G>A	uc002mba.2	-							NM_139159	NP_631898	Q86TI2	DPP9_HUMAN	dipeptidylpeptidase 9						proteolysis	cytosol|membrane	aminopeptidase activity|serine-type peptidase activity			skin(1)	1		Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|BRCA - Breast invasive adenocarcinoma(158;0.00884)		GGCCCTGAGGGATGAAGCCGG	0.612													7	21	---	---	---	---	PASS
KDM4B	23030	broad.mit.edu	37	19	5144825	5144825	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:5144825C>T	uc002mbq.3	+	21	3159	c.2933C>T	c.(2932-2934)TCC>TTC	p.S978F	KDM4B_uc010xim.1_Missense_Mutation_p.S1012F|KDM4B_uc002mbr.3_Missense_Mutation_p.S736F	NM_015015	NP_055830	O94953	KDM4B_HUMAN	jumonji domain containing 2B	978	Tudor 2.				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						GGACCCCCTTCCGAGGGGGAG	0.622													8	24	---	---	---	---	PASS
TMEM146	257062	broad.mit.edu	37	19	5772893	5772893	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:5772893C>T	uc002mda.2	+	20	1919	c.1858C>T	c.(1858-1860)CAG>TAG	p.Q620*		NM_152784	NP_689997	Q86XM0	TM146_HUMAN	transmembrane protein 146 precursor	620	Extracellular (Potential).					integral to membrane				ovary(1)|central_nervous_system(1)|pancreas(1)	3						CCTGACGGCCCAGTCGGCCAT	0.552													9	23	---	---	---	---	PASS
RANBP3	8498	broad.mit.edu	37	19	5923310	5923310	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:5923310G>A	uc002mdw.2	-	13	1331	c.1104C>T	c.(1102-1104)TCC>TCT	p.S368S	RANBP3_uc002mdv.2_Silent_p.S87S|RANBP3_uc002mdx.2_Silent_p.S363S|RANBP3_uc002mdy.2_Silent_p.S300S|RANBP3_uc002mdz.2_Silent_p.S295S|RANBP3_uc010duq.2_Silent_p.S273S|RANBP3_uc002mea.2_Silent_p.S235S|RANBP3_uc010xix.1_Silent_p.S240S	NM_007322	NP_015561	Q9H6Z4	RANB3_HUMAN	RAN binding protein 3 isoform RANBP3-d	368					intracellular transport|protein transport	cytoplasm|nucleus	Ran GTPase binding			breast(1)	1						ACTCAGCCAGGGACTCTGAAA	0.537													5	9	---	---	---	---	PASS
SLC25A23	79085	broad.mit.edu	37	19	6454034	6454034	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:6454034G>A	uc002mex.1	-	7	1003	c.861C>T	c.(859-861)TCC>TCT	p.S287S	SLC25A23_uc002mev.2_RNA|SLC25A23_uc010xjd.1_Silent_p.S104S	NM_024103	NP_077008	Q9BV35	SCMC3_HUMAN	solute carrier family 25, member 23	287	Helical; Name=3; (Potential).|Solcar 2.				transmembrane transport	integral to membrane|mitochondrial inner membrane	calcium ion binding			ovary(1)|pancreas(1)	2						CACCAGCCAGGGAGCCAGCCA	0.642													6	5	---	---	---	---	PASS
TUBB4	10382	broad.mit.edu	37	19	6495841	6495841	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:6495841C>T	uc002mfg.1	-	4	776	c.669G>A	c.(667-669)GGG>GGA	p.G223G	TUBB4_uc002mff.1_Silent_p.G151G|MIR220B_hsa-mir-220b|MI0005529_5'Flank	NM_006087	NP_006078	P04350	TBB4_HUMAN	tubulin, beta 4	223					'de novo' posttranslational protein folding|G2/M transition of mitotic cell cycle|microtubule-based movement|protein polymerization	cytosol|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(2)	2		Hepatocellular(1079;0.00213)|Renal(1328;0.0183)		Lung(535;3.23e-05)|STAD - Stomach adenocarcinoma(1328;8.24e-05)|GBM - Glioblastoma multiforme(1328;0.00839)|READ - Rectum adenocarcinoma(264;0.155)		GGTTGAGGTCCCCGTAGGTGG	0.627													19	51	---	---	---	---	PASS
TUBB4	10382	broad.mit.edu	37	19	6495842	6495842	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:6495842C>T	uc002mfg.1	-	4	775	c.668G>A	c.(667-669)GGG>GAG	p.G223E	TUBB4_uc002mff.1_Missense_Mutation_p.G151E|MIR220B_hsa-mir-220b|MI0005529_5'Flank	NM_006087	NP_006078	P04350	TBB4_HUMAN	tubulin, beta 4	223					'de novo' posttranslational protein folding|G2/M transition of mitotic cell cycle|microtubule-based movement|protein polymerization	cytosol|microtubule	GTP binding|GTPase activity|protein binding|structural molecule activity			ovary(2)	2		Hepatocellular(1079;0.00213)|Renal(1328;0.0183)		Lung(535;3.23e-05)|STAD - Stomach adenocarcinoma(1328;8.24e-05)|GBM - Glioblastoma multiforme(1328;0.00839)|READ - Rectum adenocarcinoma(264;0.155)		GTTGAGGTCCCCGTAGGTGGG	0.632													20	52	---	---	---	---	PASS
C3	718	broad.mit.edu	37	19	6697786	6697786	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:6697786G>A	uc002mfm.2	-	20	2522	c.2460C>T	c.(2458-2460)CCC>CCT	p.P820P		NM_000064	NP_000055	P01024	CO3_HUMAN	complement component 3 precursor	820					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)		TGACCTCGAAGGGGTCTGCCA	0.562													7	10	---	---	---	---	PASS
SH2D3A	10045	broad.mit.edu	37	19	6760858	6760858	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:6760858C>T	uc002mft.2	-	3	404	c.210G>A	c.(208-210)CGG>CGA	p.R70R	SH2D3A_uc010xjg.1_Intron	NM_005490	NP_005481	Q9BRG2	SH23A_HUMAN	SH2 domain containing 3A	70	SH2.				JNK cascade|small GTPase mediated signal transduction	intracellular	guanyl-nucleotide exchange factor activity|SH3/SH2 adaptor activity			breast(2)	2						GTCGGCCTGGCCGGGGACGCA	0.647													11	26	---	---	---	---	PASS
EMR4P	326342	broad.mit.edu	37	19	6977343	6977343	+	5'UTR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:6977343C>T	uc010xjk.1	-	7					EMR4P_uc010dve.1_Intron	NR_024075				RecName: Full=Putative EGF-like module-containing mucin-like hormone receptor-like 4; AltName: Full=G-protein coupled receptor 127; AltName: Full=G-protein coupled receptor PGR16; Flags: Precursor;												0						TCCCTTGTCTCATTGCACCTC	0.388													13	15	---	---	---	---	PASS
INSR	3643	broad.mit.edu	37	19	7267435	7267435	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7267435C>T	uc002mgd.1	-	2	682	c.573G>A	c.(571-573)AAG>AAA	p.K191K	INSR_uc002mge.1_Silent_p.K191K|INSR_uc002mgf.2_Silent_p.K191K	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	191	Cys-rich.				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)	TGGTCTTGCCCTTCGCGGTAC	0.542													16	21	---	---	---	---	PASS
INSR	3643	broad.mit.edu	37	19	7267448	7267448	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7267448G>A	uc002mgd.1	-	2	669	c.560C>T	c.(559-561)CCG>CTG	p.P187L	INSR_uc002mge.1_Missense_Mutation_p.P187L|INSR_uc002mgf.2_Missense_Mutation_p.P187L	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	187	Cys-rich.				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)	CGCGGTACCCGGACAGATGTC	0.537													5	34	---	---	---	---	PASS
INSR	3643	broad.mit.edu	37	19	7267449	7267449	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7267449G>A	uc002mgd.1	-	2	668	c.559C>T	c.(559-561)CCG>TCG	p.P187S	INSR_uc002mge.1_Missense_Mutation_p.P187S|INSR_uc002mgf.2_Missense_Mutation_p.P187S	NM_000208	NP_000199	P06213	INSR_HUMAN	insulin receptor isoform Long precursor	187	Cys-rich.				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)	GCGGTACCCGGACAGATGTCT	0.532													5	32	---	---	---	---	PASS
C19orf45	374877	broad.mit.edu	37	19	7573114	7573114	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7573114C>T	uc002mgm.2	+	9	1457	c.1316C>T	c.(1315-1317)CCC>CTC	p.P439L		NM_198534	NP_940936	Q8NA69	CS045_HUMAN	hypothetical protein LOC374877	439											0						CACATGGAGCCCCCTCTGGGT	0.592													5	15	---	---	---	---	PASS
PNPLA6	10908	broad.mit.edu	37	19	7606864	7606864	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7606864C>T	uc010xjq.1	+						PNPLA6_uc002mgq.1_Intron|PNPLA6_uc010xjp.1_Intron|PNPLA6_uc002mgr.1_Intron|PNPLA6_uc002mgs.2_Intron	NM_006702	NP_006693	Q8IY17	PLPL6_HUMAN	neuropathy target esterase isoform b						cell death|lipid catabolic process|phosphatidylcholine metabolic process	endoplasmic reticulum membrane|integral to membrane	lysophospholipase activity			ovary(3)	3						CATGTGTCTCCCCCAGGGGAC	0.577													5	24	---	---	---	---	PASS
STXBP2	6813	broad.mit.edu	37	19	7703600	7703600	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7703600C>T	uc002mha.3	+						STXBP2_uc002mhb.3_Intron|STXBP2_uc010dvj.2_Intron|STXBP2_uc010xjr.1_Intron|STXBP2_uc010dvk.2_Intron|STXBP2_uc002mhc.3_5'Flank|STXBP2_uc010dvl.1_5'Flank	NM_006949	NP_008880	Q15833	STXB2_HUMAN	syntaxin binding protein 2 isoform a						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						CCCTCCCCTCCCTTCCCTGCA	0.547													7	32	---	---	---	---	PASS
STXBP2	6813	broad.mit.edu	37	19	7707863	7707863	+	Intron	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7707863C>A	uc002mha.3	+						STXBP2_uc002mhb.3_Intron|STXBP2_uc010dvj.2_Intron|STXBP2_uc010xjr.1_Intron|STXBP2_uc010dvk.2_Intron|STXBP2_uc002mhc.3_Intron|STXBP2_uc002mhe.1_5'Flank	NM_006949	NP_008880	Q15833	STXB2_HUMAN	syntaxin binding protein 2 isoform a						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						CCCCCTACTTCCCCAGGCGAA	0.612													30	54	---	---	---	---	PASS
TRAPPC5	126003	broad.mit.edu	37	19	7747619	7747619	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7747619C>T	uc002mhi.1	+	2	550	c.480C>T	c.(478-480)GTC>GTT	p.V160V	TRAPPC5_uc002mhj.1_Silent_p.V160V|TRAPPC5_uc002mhk.1_Silent_p.V160V	NM_001042462	NP_001035927	Q8IUR0	TPPC5_HUMAN	trafficking protein particle complex 5	160					vesicle-mediated transport	endoplasmic reticulum	guanylate cyclase activity|heme binding				0						CTGCCAAGGTCACGGCGCACT	0.652													4	4	---	---	---	---	PASS
FCER2	2208	broad.mit.edu	37	19	7764653	7764653	+	5'UTR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7764653C>T	uc002mhn.2	-	2					FCER2_uc010xjs.1_5'UTR|FCER2_uc010xjt.1_5'UTR|FCER2_uc002mhm.2_5'UTR|FCER2_uc010dvo.2_5'UTR	NM_002002	NP_001993	P06734	FCER2_HUMAN	Fc fragment of IgE, low affinity II, receptor						positive regulation of killing of cells of other organism|positive regulation of nitric-oxide synthase 2 biosynthetic process|positive regulation of nitric-oxide synthase activity	extracellular region|integral to plasma membrane	IgE binding|integrin binding|receptor activity|sugar binding				0						CCATGGCGGTCctgcttggat	0.363													5	18	---	---	---	---	PASS
CLEC4M	10332	broad.mit.edu	37	19	7830673	7830673	+	Intron	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7830673G>T	uc002mih.2	+						CLEC4M_uc010xjv.1_Missense_Mutation_p.A94S|CLEC4M_uc002mhy.2_Missense_Mutation_p.A66S|CLEC4M_uc010xjw.1_Missense_Mutation_p.A101S|CLEC4M_uc010dvt.2_Missense_Mutation_p.A122S|CLEC4M_uc010dvs.2_Intron|CLEC4M_uc010xjx.1_Intron|CLEC4M_uc002mhz.2_Missense_Mutation_p.A122S|CLEC4M_uc002mic.2_Missense_Mutation_p.A94S|CLEC4M_uc002mia.2_Missense_Mutation_p.A101S	NM_001144910	NP_001138382	Q9H2X3	CLC4M_HUMAN	C-type lectin domain family 4, member M isoform						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						GCTGAAGGCTGCAGTGGGTGA	0.547													9	46	---	---	---	---	PASS
CLEC4M	10332	broad.mit.edu	37	19	7831059	7831059	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7831059C>T	uc002mih.2	+	5	799	c.681C>T	c.(679-681)ATC>ATT	p.I227I	CLEC4M_uc010xjv.1_Silent_p.I222I|CLEC4M_uc002mhy.2_Silent_p.I194I|CLEC4M_uc010xjw.1_Intron|CLEC4M_uc010dvt.2_Silent_p.I204I|CLEC4M_uc010dvs.2_Silent_p.I226I|CLEC4M_uc010xjx.1_Silent_p.I199I|CLEC4M_uc002mhz.2_Intron|CLEC4M_uc002mic.2_Silent_p.I222I|CLEC4M_uc002mia.2_Intron	NM_001144910	NP_001138382	Q9H2X3	CLC4M_HUMAN	C-type lectin domain family 4, member M isoform	250	Extracellular (Probable).|7.|7 X approximate tandem repeats.				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						AGCAGCAAATCTATCAAGAAC	0.483													17	38	---	---	---	---	PASS
LRRC8E	80131	broad.mit.edu	37	19	7963609	7963609	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:7963609C>T	uc002mir.2	+	3	303	c.202C>T	c.(202-204)CCG>TCG	p.P68S		NM_025061	NP_079337	Q6NSJ5	LRC8E_HUMAN	leucine rich repeat containing 8 family, member	68						integral to membrane				lung(1)|pancreas(1)	2						ATCAGAGGCCCCGTGCCAGCA	0.493													30	96	---	---	---	---	PASS
FBN3	84467	broad.mit.edu	37	19	8151968	8151968	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:8151968G>A	uc002mjf.2	-	53	6768	c.6747C>T	c.(6745-6747)GGC>GGT	p.G2249G	FBN3_uc002mje.2_Silent_p.G88G	NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	2249	EGF-like 36; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						TACCTGTGCAGCCCTCCCCAG	0.567													7	25	---	---	---	---	PASS
FBN3	84467	broad.mit.edu	37	19	8201112	8201112	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:8201112G>T	uc002mjf.2	-	11	1448	c.1427C>A	c.(1426-1428)CCG>CAG	p.P476Q		NM_032447	NP_115823	Q75N90	FBN3_HUMAN	fibrillin 3 precursor	476	EGF-like 4; calcium-binding.					proteinaceous extracellular matrix	calcium ion binding|extracellular matrix structural constituent			ovary(6)|skin(3)|pancreas(1)|central_nervous_system(1)	11						CTGGAAGCCCGGGTAGCACCG	0.647													4	33	---	---	---	---	PASS
PRAM1	84106	broad.mit.edu	37	19	8564087	8564087	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:8564087G>A	uc002mkd.2	-	2	625	c.605C>T	c.(604-606)CCG>CTG	p.P202L	PRAM1_uc002mkc.2_Missense_Mutation_p.P202L	NM_032152	NP_115528	Q96QH2	PRAM_HUMAN	PML-RARA regulated adaptor molecule 1	250	Pro-rich.						lipid binding|protein binding				0						CGGGGACCTCGGGGTAGCCTC	0.647													5	12	---	---	---	---	PASS
MYO1F	4542	broad.mit.edu	37	19	8595157	8595157	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:8595157C>T	uc002mkg.2	-	21	2365	c.2251G>A	c.(2251-2253)GAG>AAG	p.E751K		NM_012335	NP_036467	O00160	MYO1F_HUMAN	myosin IF	751						unconventional myosin complex	actin binding|ATP binding|calmodulin binding|motor activity			ovary(2)|skin(1)	3						TGACGCAGCTCGGGCCGCTCC	0.632													17	71	---	---	---	---	PASS
ACTL9	284382	broad.mit.edu	37	19	8808975	8808975	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:8808975G>A	uc002mkl.2	-	1	198	c.77C>T	c.(76-78)CCC>CTC	p.P26L		NM_178525	NP_848620	Q8TC94	ACTL9_HUMAN	actin-like 9	26						cytoplasm|cytoskeleton				large_intestine(2)|pancreas(1)	3						CACCACGTTGGGACTGGGGTT	0.667													8	33	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	8969305	8969305	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:8969305G>A	uc002mkp.2	-	79	43243	c.43039C>T	c.(43039-43041)CAG>TAG	p.Q14347*	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Nonsense_Mutation_p.Q1147*|MUC16_uc010xki.1_RNA	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						TTGTTCCTCTGGTAATTGGTG	0.507													17	63	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	8997448	8997448	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:8997448C>T	uc002mkp.2	-	59	41178	c.40974G>A	c.(40972-40974)AGG>AGA	p.R13658R	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Silent_p.R475R|MUC16_uc010xki.1_RNA	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	13660	Extracellular (Potential).|SEA 11.			Missing (in Ref. 3; AAK74120).	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						TGTTGAACTTCCTGGAGCCAG	0.572													32	60	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9002624	9002624	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9002624G>A	uc002mkp.2	-	51	40396	c.40192C>T	c.(40192-40194)CGT>TGT	p.R13398C	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Missense_Mutation_p.R215C|MUC16_uc010xki.1_RNA	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						GGGTCAGGACGATGGGTGCAG	0.572													7	32	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9003653	9003653	+	Silent	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9003653A>G	uc002mkp.2	-	49	40191	c.39987T>C	c.(39985-39987)TTT>TTC	p.F13329F	MUC16_uc010dwi.2_RNA|MUC16_uc010dwj.2_Silent_p.F146F|MUC16_uc010xki.1_Intron	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	13331	Extracellular (Potential).|SEA 9.				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						TAGTGATGGTAAAATTGAGGG	0.488													37	67	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9013861	9013861	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9013861G>A	uc002mkp.2	-	33	38733	c.38529C>T	c.(38527-38529)TCC>TCT	p.S12843S	MUC16_uc010xki.1_5'Flank	NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12845	Extracellular (Potential).			Missing (in Ref. 3; AAK74120).	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						GGCTGGGGAGGGAGGATGGAG	0.478													5	22	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9019293	9019293	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9019293A>T	uc002mkp.2	-	23	37798	c.37594T>A	c.(37594-37596)TCC>ACC	p.S12532T		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12534	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						CTTGGGAGGGAGAATGGAGTC	0.458													6	28	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9033707	9033707	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9033707G>A	uc002mkp.2	-	9	36434	c.36230C>T	c.(36229-36231)ACC>ATC	p.T12077I		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	12079	SEA 1.|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						GAAGTTGAGGGTGAATGGCAC	0.532													22	52	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9057848	9057848	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9057848C>G	uc002mkp.2	-	3	29802	c.29598G>C	c.(29596-29598)AGG>AGC	p.R9866S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	9868	Ser-rich.|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						CTGTCGGAATCCTCCTAGTCT	0.468													18	73	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9060341	9060341	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9060341G>A	uc002mkp.2	-	3	27309	c.27105C>T	c.(27103-27105)TCC>TCT	p.S9035S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	9037	Ser-rich.|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						CTTGTGTCATGGAGTCCTCAA	0.532													13	57	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9061307	9061307	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9061307G>A	uc002mkp.2	-	3	26343	c.26139C>T	c.(26137-26139)ATC>ATT	p.I8713I		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	8715	Ser-rich.|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						GAGAGGTACTGATCTCCCTTA	0.493													14	34	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9062148	9062148	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9062148C>T	uc002mkp.2	-	3	25502	c.25298G>A	c.(25297-25299)GGA>GAA	p.G8433E		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	8435	Ser-rich.|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						GACAGTGCTTCCCTCTGTGGC	0.522													24	39	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9063550	9063550	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9063550C>T	uc002mkp.2	-	3	24100	c.23896G>A	c.(23896-23898)GAA>AAA	p.E7966K		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	7968	Ser-rich.|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						CTAGTTTTTTCCAGAAGGGGA	0.468													11	29	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9063715	9063715	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9063715G>A	uc002mkp.2	-	3	23935	c.23731C>T	c.(23731-23733)CCT>TCT	p.P7911S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	7913	Ser-rich.|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						GCCCCTAAAGGACTTGTATGG	0.453													23	71	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9072915	9072915	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9072915G>A	uc002mkp.2	-	3	14735	c.14531C>T	c.(14530-14532)TCA>TTA	p.S4844L		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	4846	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						AGTAGAATGTGATTCAAATGC	0.453													13	48	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9073638	9073638	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9073638C>T	uc002mkp.2	-	3	14012	c.13808G>A	c.(13807-13809)CGA>CAA	p.R4603Q		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	4605	Thr-rich.|Extracellular (Potential).				cell adhesion	extracellular space|extrinsic to membrane|integral to membrane|plasma membrane	protein binding	p.R4603Q(1)|p.R236Q(1)		lung(30)|ovary(15)|breast(8)|large_intestine(1)|skin(1)|prostate(1)|pancreas(1)	57						GTTCTCTTTTCGTCCAGCAGT	0.502													8	29	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9073897	9073897	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9073897C>T	uc002mkp.2	-	3	13753	c.13549G>A	c.(13549-13551)GAG>AAG	p.E4517K		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	4519	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						GCCAGTATCTCATTTGATGGA	0.433													12	28	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9074626	9074626	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9074626G>A	uc002mkp.2	-	3	13024	c.12820C>T	c.(12820-12822)CCA>TCA	p.P4274S		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	4276	Thr-rich.|Extracellular (Potential).|Ser-rich.				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						GTAACCAATGGAGATGTGGCT	0.478													15	45	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9077289	9077289	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9077289G>A	uc002mkp.2	-	3	10361	c.10157C>T	c.(10156-10158)TCC>TTC	p.S3386F		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	3387	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						TTTATGTTTGGATTTATCTGT	0.468													28	107	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9091240	9091240	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9091240G>A	uc002mkp.2	-	1	779	c.575C>T	c.(574-576)CCA>CTA	p.P192L		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	192	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						TGTTTTCATTGGAGATGTGAT	0.463													18	43	---	---	---	---	PASS
MUC16	94025	broad.mit.edu	37	19	9091756	9091756	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9091756C>T	uc002mkp.2	-	1	263	c.59G>A	c.(58-60)GGG>GAG	p.G20E		NM_024690	NP_078966	Q8WXI7	MUC16_HUMAN	mucin 16	20	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						GCTCCTGCTCCCTGTCATCAA	0.517													4	15	---	---	---	---	PASS
OR1M1	125963	broad.mit.edu	37	19	9204664	9204664	+	Silent	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9204664T>C	uc010xkj.1	+	1	744	c.744T>C	c.(742-744)GTT>GTC	p.V248V		NM_001004456	NP_001004456	Q8NGA1	OR1M1_HUMAN	olfactory receptor, family 1, subfamily M,	248	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			skin(3)	3						TGTCTGTGGTTGCTCTCTTCT	0.567													18	68	---	---	---	---	PASS
ZNF317	57693	broad.mit.edu	37	19	9271287	9271287	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9271287C>T	uc002mku.2	+	7	1241	c.966C>T	c.(964-966)ATC>ATT	p.I322I	ZNF317_uc002mkv.2_Silent_p.I181I|ZNF317_uc002mkw.2_Silent_p.I290I|ZNF317_uc002mkx.2_Silent_p.I237I|ZNF317_uc002mky.2_Silent_p.I205I	NM_020933	NP_065984	Q96PQ6	ZN317_HUMAN	zinc finger protein 317	322	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						GCCACCTCATCGCACACAAGA	0.587													12	26	---	---	---	---	PASS
ZNF559	84527	broad.mit.edu	37	19	9452969	9452969	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:9452969C>T	uc002mlg.2	+	7	1489	c.842C>T	c.(841-843)TCC>TTC	p.S281F	ZNF559_uc002mlf.2_Missense_Mutation_p.S50F|ZNF559_uc010dwl.1_Missense_Mutation_p.S50F|ZNF559_uc010xkn.1_Missense_Mutation_p.S273F|ZNF559_uc010dwm.1_3'UTR|ZNF559_uc002mle.3_Missense_Mutation_p.S345F|ZNF559_uc010dwk.1_Missense_Mutation_p.S50F|ZNF559_uc002mld.2_3'UTR|ZNF559_uc010dwo.1_Intron|ZNF177_uc002mli.2_Intron|ZNF177_uc002mlj.2_Intron	NM_032497	NP_115886	Q9BR84	ZN559_HUMAN	zinc finger protein 559	281					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TTTGCTTTTTCCCCAGATCTT	0.333													9	31	---	---	---	---	PASS
COL5A3	50509	broad.mit.edu	37	19	10080536	10080536	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10080536G>A	uc002mmq.1	-							NM_015719	NP_056534	P25940	CO5A3_HUMAN	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)			CCTTGCCAGGGGGACTCACCT	0.607													14	36	---	---	---	---	PASS
COL5A3	50509	broad.mit.edu	37	19	10084444	10084444	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10084444G>A	uc002mmq.1	-	49	3686	c.3600C>T	c.(3598-3600)GCC>GCT	p.A1200A		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	1200	Triple-helical region.				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)			TCTCACCCACGGCGCCTGGCT	0.602													19	41	---	---	---	---	PASS
COL5A3	50509	broad.mit.edu	37	19	10088084	10088084	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10088084C>T	uc002mmq.1	-	43	3277	c.3191G>A	c.(3190-3192)GGA>GAA	p.G1064E		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	1064	Triple-helical region.				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)			TCCAGGGGGTCCCAGAGGCCC	0.657													10	33	---	---	---	---	PASS
COL5A3	50509	broad.mit.edu	37	19	10104488	10104488	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10104488G>A	uc002mmq.1	-							NM_015719	NP_056534	P25940	CO5A3_HUMAN	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)			CGGCCCTATGGAGAAAGTAAG	0.512													14	18	---	---	---	---	PASS
COL5A3	50509	broad.mit.edu	37	19	10106767	10106767	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10106767C>T	uc002mmq.1	-	15	1594	c.1508G>A	c.(1507-1509)GGA>GAA	p.G503E		NM_015719	NP_056534	P25940	CO5A3_HUMAN	collagen, type V, alpha 3 preproprotein	503	Triple-helical region.				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)			TCCCTCCTCTCCTTTCAGACC	0.577													33	55	---	---	---	---	PASS
RDH8	50700	broad.mit.edu	37	19	10132325	10132325	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10132325G>A	uc002mmr.2	+	6	1085	c.836G>A	c.(835-837)CGA>CAA	p.R279Q		NM_015725	NP_056540	Q9NYR8	RDH8_HUMAN	retinol dehydrogenase 8 (all-trans)	279					estrogen biosynthetic process|response to stimulus|visual perception	cytoplasm|integral to plasma membrane	binding|estradiol 17-beta-dehydrogenase activity|NADP-retinol dehydrogenase activity|retinol dehydrogenase activity			ovary(3)|pancreas(1)	4			Epithelial(33;4.24e-05)		Vitamin A(DB00162)	CTGTATGTGCGAACGACCCAC	0.627													11	18	---	---	---	---	PASS
PDE4A	5141	broad.mit.edu	37	19	10557008	10557008	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10557008C>T	uc002moj.2	+	2	543	c.435C>T	c.(433-435)TCC>TCT	p.S145S	PDE4A_uc002mok.2_Silent_p.S119S|PDE4A_uc002mol.2_Silent_p.S84S	NM_001111307	NP_001104777	P27815	PDE4A_HUMAN	phosphodiesterase 4A isoform 1	145					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)	GCCGGGAGTCCTTCCTGTACC	0.662													7	16	---	---	---	---	PASS
KEAP1	9817	broad.mit.edu	37	19	10602625	10602625	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10602625G>A	uc002moq.1	-	3	1109	c.953C>T	c.(952-954)CCC>CTC	p.P318L	KEAP1_uc002mop.1_Missense_Mutation_p.P36L|KEAP1_uc002mor.1_Missense_Mutation_p.P318L	NM_012289	NP_036421	Q14145	KEAP1_HUMAN	kelch-like ECH-associated protein 1	318					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)			CGCCCGGCAGGGCATCACCTG	0.642													5	20	---	---	---	---	PASS
KRI1	65095	broad.mit.edu	37	19	10671754	10671754	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10671754G>A	uc002moy.1	-	8	615	c.606C>T	c.(604-606)GCC>GCT	p.A202A	KRI1_uc002mow.1_5'Flank|KRI1_uc002mox.1_Silent_p.A198A	NM_023008	NP_075384	Q8N9T8	KRI1_HUMAN	KRI1 homolog	202	Glu-rich.									ovary(1)	1			Epithelial(33;9.2e-06)|all cancers(31;3.9e-05)			CCTCCTCCTGGGCCTGGGGGA	0.612													16	27	---	---	---	---	PASS
DNM2	1785	broad.mit.edu	37	19	10893691	10893691	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10893691C>T	uc002mps.1	+	6	908	c.744C>T	c.(742-744)ATC>ATT	p.I248I	DNM2_uc010dxk.2_RNA|DNM2_uc002mpt.1_Silent_p.I248I|DNM2_uc002mpv.1_Silent_p.I248I|DNM2_uc002mpu.1_Silent_p.I248I|DNM2_uc010dxl.1_Silent_p.I248I|DNM2_uc002mpw.2_5'UTR	NM_001005361	NP_001005361	P50570	DYN2_HUMAN	dynamin 2 isoform 2	248					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)			AGAAGGACATCCGTGCAGCAC	0.607													6	23	---	---	---	---	PASS
SMARCA4	6597	broad.mit.edu	37	19	11094861	11094861	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:11094861C>T	uc002mqf.3	+	2	318	c.34C>T	c.(34-36)CCT>TCT	p.P12S	SMARCA4_uc010dxp.2_Missense_Mutation_p.P12S|SMARCA4_uc010dxo.2_Missense_Mutation_p.P12S|SMARCA4_uc002mqg.1_Missense_Mutation_p.P12S|SMARCA4_uc010dxq.2_Missense_Mutation_p.P12S|SMARCA4_uc010dxr.2_Missense_Mutation_p.P12S|SMARCA4_uc002mqj.3_Missense_Mutation_p.P12S|SMARCA4_uc010dxs.2_Missense_Mutation_p.P12S|SMARCA4_uc002mqe.2_Missense_Mutation_p.P12S	NM_003072	NP_003063	P51532	SMCA4_HUMAN	SWI/SNF-related matrix-associated	12	Necessary for interaction with SS18L1/CREST (By similarity).				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)				GGGCGGAACTCCTCGGCCAGG	0.687			F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				4	15	---	---	---	---	PASS
SMARCA4	6597	broad.mit.edu	37	19	11094862	11094862	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:11094862C>T	uc002mqf.3	+	2	319	c.35C>T	c.(34-36)CCT>CTT	p.P12L	SMARCA4_uc010dxp.2_Missense_Mutation_p.P12L|SMARCA4_uc010dxo.2_Missense_Mutation_p.P12L|SMARCA4_uc002mqg.1_Missense_Mutation_p.P12L|SMARCA4_uc010dxq.2_Missense_Mutation_p.P12L|SMARCA4_uc010dxr.2_Missense_Mutation_p.P12L|SMARCA4_uc002mqj.3_Missense_Mutation_p.P12L|SMARCA4_uc010dxs.2_Missense_Mutation_p.P12L|SMARCA4_uc002mqe.2_Missense_Mutation_p.P12L	NM_003072	NP_003063	P51532	SMCA4_HUMAN	SWI/SNF-related matrix-associated	12	Necessary for interaction with SS18L1/CREST (By similarity).				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)				GGCGGAACTCCTCGGCCAGGT	0.687			F|N|Mis		NSCLC				Rhabdoid_Predisposition_syndrome				4	15	---	---	---	---	PASS
DOCK6	57572	broad.mit.edu	37	19	11313129	11313129	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:11313129C>A	uc002mqs.3	-	43	5433	c.5392G>T	c.(5392-5394)GTC>TTC	p.V1798F	DOCK6_uc002mqr.3_Missense_Mutation_p.V198F|DOCK6_uc010xlq.1_Missense_Mutation_p.V1137F	NM_020812	NP_065863	Q96HP0	DOCK6_HUMAN	dedicator of cytokinesis 6	1798	DHR-2.				blood coagulation	cytosol	GTP binding|GTPase binding|guanyl-nucleotide exchange factor activity			ovary(2)|skin(1)	3						ATCTCAACGACGTCGTCGCCA	0.552													8	25	---	---	---	---	PASS
EPOR	2057	broad.mit.edu	37	19	11489065	11489065	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:11489065C>T	uc002mrj.1	-	8	1258	c.1122G>A	c.(1120-1122)TGG>TGA	p.W374*	EPOR_uc002mrh.2_Nonsense_Mutation_p.W33*|EPOR_uc002mri.2_Nonsense_Mutation_p.W201*|EPOR_uc002mrk.1_Nonsense_Mutation_p.W201*|EPOR_uc002mrl.1_RNA|EPOR_uc010xlx.1_RNA|EPOR_uc010xly.1_Nonsense_Mutation_p.W201*	NM_000121	NP_000112	P19235	EPOR_HUMAN	erythropoietin receptor precursor	374	Cytoplasmic (Potential).					extracellular region|integral to plasma membrane	erythropoietin receptor activity|identical protein binding			ovary(1)	1					Darbepoetin alfa(DB00012)|Epoetin alfa(DB00016)	GGGGCAGCAACCATTTGTCCA	0.622											OREG0025254	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	6	17	---	---	---	---	PASS
RGL3	57139	broad.mit.edu	37	19	11510794	11510794	+	Intron	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:11510794G>T	uc002mrp.2	-						RGL3_uc002mrn.2_Intron|RGL3_uc002mrm.2_Intron|RGL3_uc002mro.2_Intron	NM_001035223	NP_001030300	Q3MIN7	RGL3_HUMAN	ral guanine nucleotide dissociation						regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	intracellular				ovary(1)	1						CCTAAGGATGGGGACAGGGGA	0.597													5	51	---	---	---	---	PASS
ZNF823	55552	broad.mit.edu	37	19	11832689	11832689	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:11832689G>A	uc002msm.2	-	4	1786	c.1660C>T	c.(1660-1662)CCC>TCC	p.P554S	ZNF823_uc010xmd.1_Missense_Mutation_p.P372S|ZNF823_uc010dyi.1_Missense_Mutation_p.P510S	NM_001080493	NP_001073962	P16415	ZN823_HUMAN	ZFP-36 for a zinc finger protein	554					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						CATTCATAGGGTTTCTCTCCA	0.428										HNSCC(68;0.2)			25	38	---	---	---	---	PASS
ZNF441	126068	broad.mit.edu	37	19	11891967	11891967	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:11891967G>A	uc010dyj.2	+	4	1522	c.1328G>A	c.(1327-1329)GGG>GAG	p.G443E	ZNF441_uc002msn.3_Missense_Mutation_p.G399E	NM_152355	NP_689568	Q8N8Z8	ZN441_HUMAN	zinc finger protein 441	443					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						ATTCACACTGGGGAGAGACCC	0.388													6	41	---	---	---	---	PASS
ZNF441	126068	broad.mit.edu	37	19	11892026	11892026	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:11892026C>T	uc010dyj.2	+	4	1581	c.1387C>T	c.(1387-1389)CGA>TGA	p.R463*	ZNF441_uc002msn.3_Nonsense_Mutation_p.R419*	NM_152355	NP_689568	Q8N8Z8	ZN441_HUMAN	zinc finger protein 441	463	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						CAATTACATTCGAGTACATGA	0.388													11	39	---	---	---	---	PASS
ZNF441	126068	broad.mit.edu	37	19	11892203	11892203	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:11892203G>A	uc010dyj.2	+	4	1758	c.1564G>A	c.(1564-1566)GAA>AAA	p.E522K	ZNF441_uc002msn.3_Missense_Mutation_p.E478K	NM_152355	NP_689568	Q8N8Z8	ZN441_HUMAN	zinc finger protein 441	522	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1						TCGAAGACATGAAAGAATTCA	0.413													23	41	---	---	---	---	PASS
ZNF439	90594	broad.mit.edu	37	19	11979089	11979089	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:11979089G>A	uc002mss.2	+	3	1333	c.1205G>A	c.(1204-1206)AGG>AAG	p.R402K	ZNF439_uc002msr.2_Missense_Mutation_p.R266K	NM_152262	NP_689475	Q8NDP4	ZN439_HUMAN	zinc finger protein 439	402	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						TATCATGAAAGGACTCACACT	0.438													11	31	---	---	---	---	PASS
ZNF700	90592	broad.mit.edu	37	19	12060004	12060004	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:12060004C>T	uc002msu.2	+	4	1291	c.1165C>T	c.(1165-1167)CGC>TGC	p.R389C	ZNF700_uc010xme.1_Missense_Mutation_p.R407C|ZNF763_uc010xmf.1_Intron	NM_144566	NP_653167	Q9H0M5	ZN700_HUMAN	zinc finger protein 700	389					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						TGGAGAGAAACGCTATAAATG	0.383													14	38	---	---	---	---	PASS
ZNF700	90592	broad.mit.edu	37	19	12060728	12060728	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:12060728G>A	uc002msu.2	+	4	2015	c.1889G>A	c.(1888-1890)AGA>AAA	p.R630K	ZNF700_uc010xme.1_Missense_Mutation_p.R648K|ZNF763_uc010xmf.1_Intron	NM_144566	NP_653167	Q9H0M5	ZN700_HUMAN	zinc finger protein 700	630	C2H2-type 15.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AAAGCCTTCAGATCTGCCTCA	0.438													14	50	---	---	---	---	PASS
ZNF443	10224	broad.mit.edu	37	19	12543259	12543259	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:12543259G>A	uc002mtu.2	-							NM_005815	NP_005806	Q9Y2A4	ZN443_HUMAN	zinc finger protein 443						induction of apoptosis|regulation of transcription, DNA-dependent|response to stress|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)	1						TTACTAAAAGGTATACACAGA	0.299													8	13	---	---	---	---	PASS
ZNF709	163051	broad.mit.edu	37	19	12575525	12575525	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:12575525G>A	uc002mtv.3	-	4	1372	c.1211C>T	c.(1210-1212)TCC>TTC	p.S404F	ZNF709_uc002mtw.3_Missense_Mutation_p.S372F|ZNF709_uc002mtx.3_Missense_Mutation_p.S404F	NM_152601	NP_689814	Q8N972	ZN709_HUMAN	zinc finger protein 709 isoform a	404	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						AAAGGAACTGGAACAACTGAA	0.403													8	67	---	---	---	---	PASS
ZNF791	163049	broad.mit.edu	37	19	12739979	12739979	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:12739979C>T	uc002mua.2	+	4	1798	c.1636C>T	c.(1636-1638)CAC>TAC	p.H546Y	ZNF791_uc010xml.1_Missense_Mutation_p.H514Y|ZNF791_uc010dyu.1_Missense_Mutation_p.H437Y|ZNF791_uc010xmm.1_Missense_Mutation_p.H437Y	NM_153358	NP_699189	Q3KP31	ZN791_HUMAN	zinc finger protein 791	546	C2H2-type 16.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						TACAAGAATTCACAATTATGA	0.368													14	42	---	---	---	---	PASS
GCDH	2639	broad.mit.edu	37	19	13004291	13004291	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:13004291C>T	uc002mvq.2	+						GCDH_uc010xms.1_Intron|GCDH_uc002mvp.2_Intron|GCDH_uc010xmt.1_Intron|GCDH_uc010xmu.1_Intron	NM_000159	NP_000150	Q92947	GCDH_HUMAN	glutaryl-Coenzyme A dehydrogenase isoform a						lysine catabolic process	mitochondrial matrix	flavin adenine dinucleotide binding|glutaryl-CoA dehydrogenase activity|protein binding				0						CTCCTACTACCACCAGGATAT	0.592													4	19	---	---	---	---	PASS
CACNA1A	773	broad.mit.edu	37	19	13566011	13566011	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:13566011C>T	uc010dze.2	-	2	545	c.309G>A	c.(307-309)ATG>ATA	p.M103I	CACNA1A_uc002mwy.3_Missense_Mutation_p.M103I	NM_001127221	NP_001120693	O00555	CAC1A_HUMAN	calcium channel, alpha 1A subunit isoform 3	103	Helical; Name=S1 of repeat I; (Potential).|I.				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)	TGGCTAAAATCATATATTCAA	0.483													22	83	---	---	---	---	PASS
ASF1B	55723	broad.mit.edu	37	19	14236970	14236970	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14236970G>A	uc002mye.2	-	2	361	c.189C>T	c.(187-189)GGC>GGT	p.G63G		NM_018154	NP_060624	Q9NVP2	ASF1B_HUMAN	anti-silencing function 1B	63	Interaction with CHAF1B.|Interaction with histone H3 (By similarity).				cell differentiation|chromatin modification|multicellular organismal development|regulation of transcription, DNA-dependent|spermatogenesis|transcription, DNA-dependent	nucleus					0						CTGGCACAGGGCCCACCAGCA	0.478													9	27	---	---	---	---	PASS
LPHN1	22859	broad.mit.edu	37	19	14266334	14266334	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14266334C>T	uc010xnn.1	-	19	3442	c.3146G>A	c.(3145-3147)TGG>TAG	p.W1049*	LPHN1_uc010xno.1_Nonsense_Mutation_p.W1044*|uc002myf.2_Intron	NM_001008701	NP_001008701	O94910	LPHN1_HUMAN	latrophilin 1 isoform 1 precursor	1049	Cytoplasmic (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						CCCCAGCGCCCAGGATCTGGG	0.667													7	21	---	---	---	---	PASS
CD97	976	broad.mit.edu	37	19	14516556	14516556	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14516556C>T	uc002myl.2	+						CD97_uc002mym.2_Intron|CD97_uc002myn.2_Intron	NM_078481	NP_510966	P48960	CD97_HUMAN	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						GGTGCCACTCCTAGGACTGGA	0.622													30	44	---	---	---	---	PASS
DDX39	10212	broad.mit.edu	37	19	14522414	14522414	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14522414G>A	uc010xnp.1	-						DDX39_uc002myo.2_Intron|DDX39_uc010dzl.2_Intron|DDX39_uc010dzm.1_Intron	NM_005804	NP_005795	O00148	DX39A_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 39						mRNA export from nucleus|nuclear mRNA splicing, via spliceosome	nucleus	ATP binding|ATP-dependent helicase activity|nucleic acid binding|protein binding				0						CCGTCACCTGGGAAGTGGCAT	0.567													5	26	---	---	---	---	PASS
DNAJB1	3337	broad.mit.edu	37	19	14629122	14629122	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14629122C>A	uc002myz.1	-	1	80	c.40G>T	c.(40-42)GGC>TGC	p.G14C	DNAJB1_uc010xnr.1_Intron	NM_006145	NP_006136	P25685	DNJB1_HUMAN	DnaJ (Hsp40) homolog, subfamily B, member 1	14	J.				chaperone cofactor-dependent protein refolding|response to unfolded protein	cytoplasm|nucleolus	heat shock protein binding|unfolded protein binding				0				GBM - Glioblastoma multiforme(1328;0.0476)		TCCGACGCGCCGCGGGCCAGG	0.706													3	10	---	---	---	---	PASS
ZNF333	84449	broad.mit.edu	37	19	14806396	14806396	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:14806396C>T	uc002mzn.2	+	4	280	c.146C>T	c.(145-147)CCC>CTC	p.P49L	ZNF333_uc010dzq.2_Missense_Mutation_p.P49L|ZNF333_uc002mzk.3_5'UTR|ZNF333_uc002mzl.3_Missense_Mutation_p.P49L|ZNF333_uc002mzm.2_Intron|ZNF333_uc010dzr.1_RNA	NM_032433	NP_115809	Q96JL9	ZN333_HUMAN	zinc finger protein 333	49	KRAB 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|central_nervous_system(1)|pancreas(1)	3						CCATGCAAACCCAGTTGTGTC	0.527													4	17	---	---	---	---	PASS
OR7C2	26658	broad.mit.edu	37	19	15053203	15053203	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:15053203G>A	uc010xoc.1	+	1	903	c.903G>A	c.(901-903)GGG>GGA	p.G301G		NM_012377	NP_036509	O60412	OR7C2_HUMAN	olfactory receptor, family 7, subfamily C,	301	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	Ovarian(108;0.203)					GGTCACTGGGGAGACTCCTCC	0.542													12	20	---	---	---	---	PASS
OR7C2	26658	broad.mit.edu	37	19	15053234	15053234	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:15053234G>A	uc010xoc.1	+	1	934	c.934G>A	c.(934-936)GAG>AAG	p.E312K		NM_012377	NP_036509	O60412	OR7C2_HUMAN	olfactory receptor, family 7, subfamily C,	312	Cytoplasmic (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(2)|skin(1)	3	Ovarian(108;0.203)					GTCTCTCAAAGAGGGGACCAT	0.493													7	22	---	---	---	---	PASS
CCDC105	126402	broad.mit.edu	37	19	15132449	15132449	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:15132449G>A	uc002nae.2	+	5	1162	c.1063G>A	c.(1063-1065)GGA>AGA	p.G355R		NM_173482	NP_775753	Q8IYK2	CC105_HUMAN	coiled-coil domain containing 105	355					microtubule cytoskeleton organization	microtubule				ovary(1)	1						TATGACGTTAGGACTGATGAG	0.587													8	34	---	---	---	---	PASS
CCDC105	126402	broad.mit.edu	37	19	15132450	15132450	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:15132450G>A	uc002nae.2	+	5	1163	c.1064G>A	c.(1063-1065)GGA>GAA	p.G355E		NM_173482	NP_775753	Q8IYK2	CC105_HUMAN	coiled-coil domain containing 105	355					microtubule cytoskeleton organization	microtubule				ovary(1)	1						ATGACGTTAGGACTGATGAGG	0.587													8	34	---	---	---	---	PASS
NOTCH3	4854	broad.mit.edu	37	19	15296349	15296349	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:15296349G>A	uc002nan.2	-	13	2169	c.2093C>T	c.(2092-2094)CCC>CTC	p.P698L	NOTCH3_uc002nao.1_Missense_Mutation_p.P698L	NM_000435	NP_000426	Q9UM47	NOTC3_HUMAN	Notch homolog 3 precursor	698	Extracellular (Potential).|EGF-like 18.				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)			ATGGGCACAGGGATGGCTCGG	0.672													7	12	---	---	---	---	PASS
EPHX3	79852	broad.mit.edu	37	19	15338338	15338338	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:15338338G>A	uc002nap.2	-	7	1202	c.993C>T	c.(991-993)ATC>ATT	p.I331I	EPHX3_uc002naq.2_Silent_p.I331I	NM_024794	NP_079070	Q9H6B9	EPHX3_HUMAN	abhydrolase domain containing 9 precursor	331						extracellular region	hydrolase activity				0						TGCCTGGCAGGATGTGGGCCT	0.612													9	17	---	---	---	---	PASS
CYP4F3	4051	broad.mit.edu	37	19	15769356	15769356	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:15769356G>A	uc002nbj.2	+	11	1355	c.1305G>A	c.(1303-1305)CCG>CCA	p.P435P	CYP4F3_uc010xok.1_Silent_p.P435P|CYP4F3_uc010xol.1_Silent_p.P435P|CYP4F3_uc010xom.1_Silent_p.P286P|CYP4F3_uc002nbk.2_Silent_p.P435P|CYP4F3_uc010xon.1_Silent_p.P145P	NM_000896	NP_000887	Q08477	CP4F3_HUMAN	cytochrome P450, family 4, subfamily F,	435					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						CCGTGTGGCCGGACCCTGAGG	0.577													18	44	---	---	---	---	PASS
CYP4F3	4051	broad.mit.edu	37	19	15770159	15770159	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:15770159G>A	uc002nbj.2	+	13	1577	c.1527G>A	c.(1525-1527)GAG>GAA	p.E509E	CYP4F3_uc010xok.1_Silent_p.E509E|CYP4F3_uc010xol.1_Silent_p.E509E|CYP4F3_uc010xom.1_Silent_p.E360E|CYP4F3_uc002nbk.2_Silent_p.E509E|CYP4F3_uc010xon.1_Silent_p.E219E	NM_000896	NP_000887	Q08477	CP4F3_HUMAN	cytochrome P450, family 4, subfamily F,	509					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						TGCGCGCAGAGGGCGGACTTT	0.587													4	14	---	---	---	---	PASS
OR10H2	26538	broad.mit.edu	37	19	15839433	15839433	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:15839433C>T	uc002nbm.2	+	1	600	c.580C>T	c.(580-582)CCA>TCA	p.P194S		NM_013939	NP_039227	O60403	O10H2_HUMAN	olfactory receptor, family 10, subfamily H,	194	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|central_nervous_system(1)|skin(1)	3	all_hematologic(1;0.0517)|Acute lymphoblastic leukemia(2;0.074)					AAATAATGTACCAGCTGTGGC	0.507													22	35	---	---	---	---	PASS
OR10H3	26532	broad.mit.edu	37	19	15852774	15852774	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:15852774G>A	uc010xoq.1	+	1	572	c.572G>A	c.(571-573)GGG>GAG	p.G191E		NM_013938	NP_039226	O60404	O10H3_HUMAN	olfactory receptor, family 10, subfamily H,	191	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity				0						TTGGCCTGTGGGAGCAAGACA	0.463													32	65	---	---	---	---	PASS
OR10H4	126541	broad.mit.edu	37	19	16060372	16060372	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:16060372C>T	uc010xov.1	+	1	555	c.555C>T	c.(553-555)CTC>CTT	p.L185L		NM_001004465	NP_001004465	Q8NGA5	O10H4_HUMAN	olfactory receptor, family 10, subfamily H,	185	Extracellular (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)|breast(1)	2						TGCTTTCCCTCTTGAAGTTGG	0.463													15	62	---	---	---	---	PASS
CIB3	117286	broad.mit.edu	37	19	16279007	16279007	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:16279007G>A	uc002nds.2	-	4	287	c.287C>T	c.(286-288)TCC>TTC	p.S96F	CIB3_uc010eae.2_Missense_Mutation_p.S35F|CIB3_uc010eaf.2_Intron|CIB3_uc010eag.2_Missense_Mutation_p.S47F	NM_054113	NP_473454	Q96Q77	CIB3_HUMAN	DNA-dependent protein kinase catalytic	96	EF-hand 1.						calcium ion binding			ovary(1)	1						ACTCATCACGGAAAACATGTC	0.542													9	13	---	---	---	---	PASS
C19orf44	84167	broad.mit.edu	37	19	16613879	16613879	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:16613879C>T	uc002neh.1	+	3	836	c.763C>T	c.(763-765)CCA>TCA	p.P255S	MED26_uc002nee.2_Intron|C19orf44_uc002nef.1_Missense_Mutation_p.P255S|C19orf44_uc002neg.2_Missense_Mutation_p.P255S|C19orf44_uc010eai.1_RNA	NM_032207	NP_115583	Q9H6X5	CS044_HUMAN	hypothetical protein LOC84167	255											0						ATATCAGGTCCCATCTCAACT	0.338													13	26	---	---	---	---	PASS
TMEM38A	79041	broad.mit.edu	37	19	16797209	16797209	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:16797209C>T	uc002nes.2	+	5	756	c.665C>T	c.(664-666)TCC>TTC	p.S222F		NM_024074	NP_076979	Q9H6F2	TM38A_HUMAN	transmembrane protein 38A	222	Helical; (Potential).					integral to membrane|nuclear membrane|sarcoplasmic reticulum membrane	potassium channel activity			central_nervous_system(2)|ovary(1)	3						TTCATGGTGTCCTGTAAGGTA	0.557													16	23	---	---	---	---	PASS
NWD1	284434	broad.mit.edu	37	19	16908679	16908679	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:16908679C>T	uc002neu.3	+	16	3863	c.3441C>T	c.(3439-3441)TCC>TCT	p.S1147S	NWD1_uc002net.3_Silent_p.S1012S|NWD1_uc002nev.3_Silent_p.S941S			Q149M9	NWD1_HUMAN	RecName: Full=NACHT and WD repeat domain-containing protein 1;	1147	WD 8.						ATP binding			skin(3)|ovary(2)|pancreas(2)	7						TCACGGGGTCCCTTGATGCGC	0.522													74	96	---	---	---	---	PASS
F2RL3	9002	broad.mit.edu	37	19	17000411	17000411	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:17000411C>T	uc002nfa.2	+	2	312	c.137C>T	c.(136-138)CCC>CTC	p.P46L		NM_003950	NP_003941	Q96RI0	PAR4_HUMAN	coagulation factor II (thrombin) receptor-like 3	46					activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|platelet activation|positive regulation of release of sequestered calcium ion into cytosol	extracellular region|integral to plasma membrane	thrombin receptor activity				0						CTGCCTGCCCCCCGCGGCTAC	0.672													12	31	---	---	---	---	PASS
PLVAP	83483	broad.mit.edu	37	19	17476593	17476593	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:17476593G>A	uc002ngk.1	-	3	731	c.681C>T	c.(679-681)CCC>CCT	p.P227P		NM_031310	NP_112600	Q9BX97	PLVAP_HUMAN	plasmalemma vesicle associated protein	227	Extracellular (Potential).					caveola|integral to membrane|perinuclear region of cytoplasm					0						CCTTGTCCAGGGGCAGGCAGA	0.572													15	27	---	---	---	---	PASS
JAK3	3718	broad.mit.edu	37	19	17945968	17945968	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:17945968C>T	uc002nhn.3	-	15	2071	c.1971G>A	c.(1969-1971)CGG>CGA	p.R657R	JAK3_uc010ebh.2_Intron|JAK3_uc002nho.2_Silent_p.R657R	NM_000215	NP_000206	P52333	JAK3_HUMAN	Janus kinase 3	657	Protein kinase 1.				B cell differentiation|cytokine-mediated signaling pathway|enzyme linked receptor protein signaling pathway|intracellular protein kinase cascade|negative regulation of dendritic cell cytokine production|negative regulation of FasL biosynthetic process|negative regulation of interleukin-10 production|negative regulation of interleukin-12 production|negative regulation of T-helper 1 cell differentiation|negative regulation of thymocyte apoptosis|peptidyl-tyrosine phosphorylation|positive regulation of anti-apoptosis|response to interleukin-15|response to interleukin-2|response to interleukin-4|response to interleukin-9|T cell homeostasis	cytoskeleton|cytosol|endomembrane system|membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding	p.R657Q(4)		haematopoietic_and_lymphoid_tissue(40)|lung(5)|breast(5)|ovary(3)|stomach(2)|upper_aerodigestive_tract(1)	56						CAGCCCCCTCCCGAGCCAGGA	0.622		2	Mis		acute megakaryocytic leukemia|								6	17	---	---	---	---	PASS
JAK3	3718	broad.mit.edu	37	19	17945969	17945969	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:17945969C>T	uc002nhn.3	-	15	2070	c.1970G>A	c.(1969-1971)CGG>CAG	p.R657Q	JAK3_uc010ebh.2_Intron|JAK3_uc002nho.2_Missense_Mutation_p.R657Q	NM_000215	NP_000206	P52333	JAK3_HUMAN	Janus kinase 3	657	Protein kinase 1.				B cell differentiation|cytokine-mediated signaling pathway|enzyme linked receptor protein signaling pathway|intracellular protein kinase cascade|negative regulation of dendritic cell cytokine production|negative regulation of FasL biosynthetic process|negative regulation of interleukin-10 production|negative regulation of interleukin-12 production|negative regulation of T-helper 1 cell differentiation|negative regulation of thymocyte apoptosis|peptidyl-tyrosine phosphorylation|positive regulation of anti-apoptosis|response to interleukin-15|response to interleukin-2|response to interleukin-4|response to interleukin-9|T cell homeostasis	cytoskeleton|cytosol|endomembrane system|membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding	p.R657Q(4)		haematopoietic_and_lymphoid_tissue(40)|lung(5)|breast(5)|ovary(3)|stomach(2)|upper_aerodigestive_tract(1)	56						AGCCCCCTCCCGAGCCAGGAG	0.617		2	Mis		acute megakaryocytic leukemia|								6	16	---	---	---	---	PASS
JAK3	3718	broad.mit.edu	37	19	17950469	17950469	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:17950469G>A	uc002nhn.3	-	10	1358	c.1258C>T	c.(1258-1260)CCC>TCC	p.P420S	JAK3_uc010ebh.2_RNA|JAK3_uc002nho.2_Missense_Mutation_p.P420S|JAK3_uc010xpx.1_Missense_Mutation_p.P420S	NM_000215	NP_000206	P52333	JAK3_HUMAN	Janus kinase 3	420	SH2; atypical.				B cell differentiation|cytokine-mediated signaling pathway|enzyme linked receptor protein signaling pathway|intracellular protein kinase cascade|negative regulation of dendritic cell cytokine production|negative regulation of FasL biosynthetic process|negative regulation of interleukin-10 production|negative regulation of interleukin-12 production|negative regulation of T-helper 1 cell differentiation|negative regulation of thymocyte apoptosis|peptidyl-tyrosine phosphorylation|positive regulation of anti-apoptosis|response to interleukin-15|response to interleukin-2|response to interleukin-4|response to interleukin-9|T cell homeostasis	cytoskeleton|cytosol|endomembrane system|membrane	ATP binding|non-membrane spanning protein tyrosine kinase activity|protein binding			haematopoietic_and_lymphoid_tissue(40)|lung(5)|breast(5)|ovary(3)|stomach(2)|upper_aerodigestive_tract(1)	56						GGACCAAGGGGGTTCTGCAAA	0.498		2	Mis		acute megakaryocytic leukemia|								5	2	---	---	---	---	PASS
SLC5A5	6528	broad.mit.edu	37	19	17985516	17985516	+	Silent	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:17985516T>C	uc002nhr.3	+	4	866	c.519T>C	c.(517-519)ATT>ATC	p.I173I		NM_000453	NP_000444	Q92911	SC5A5_HUMAN	solute carrier family 5 (sodium iodide	173	Helical; (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						CCACCGGAATTATCTGCACCT	0.607													10	14	---	---	---	---	PASS
SLC5A5	6528	broad.mit.edu	37	19	17986751	17986751	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:17986751C>T	uc002nhr.3	+							NM_000453	NP_000444	Q92911	SC5A5_HUMAN	solute carrier family 5 (sodium iodide						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						CTCTCTGTCCCATGCTGCAGG	0.502													9	20	---	---	---	---	PASS
ARRDC2	27106	broad.mit.edu	37	19	18121061	18121061	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:18121061C>T	uc002nhv.2	+	6	1049	c.906C>T	c.(904-906)ATC>ATT	p.I302I	ARRDC2_uc002nhu.2_Silent_p.I297I	NM_015683	NP_056498	Q8TBH0	ARRD2_HUMAN	arrestin domain containing 2 isoform 1	302										pancreas(1)	1						CACTGGTGATCGGCACCATTC	0.652													5	16	---	---	---	---	PASS
KIAA1683	80726	broad.mit.edu	37	19	18380299	18380299	+	5'UTR	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:18380299G>A	uc002nin.2	-	2					KIAA1683_uc010ebn.2_5'UTR|KIAA1683_uc010xqe.1_5'UTR	NM_025249	NP_079525	Q9H0B3	K1683_HUMAN	KIAA1683 isoform b							mitochondrion				ovary(2)	2						AGATTTGGAGGAGTAGCAGGA	0.527													4	17	---	---	---	---	PASS
LSM4	25804	broad.mit.edu	37	19	18426871	18426871	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:18426871G>A	uc002niq.2	-	2	179	c.8C>T	c.(7-9)CCC>CTC	p.P3L		NM_012321	NP_036453	Q9Y4Z0	LSM4_HUMAN	U6 snRNA-associated Sm-like protein 4	3					exonucleolytic nuclear-transcribed mRNA catabolic process involved in deadenylation-dependent decay|mRNA processing|RNA splicing	cytosol|U6 snRNP	protein binding|RNA binding				0						CAGTGACAAGGGAAGCTGAAA	0.557													15	27	---	---	---	---	PASS
COMP	1311	broad.mit.edu	37	19	18895874	18895874	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:18895874G>A	uc002nke.2	-	16	1782	c.1746C>T	c.(1744-1746)TTC>TTT	p.F582F	COMP_uc002nkd.2_Silent_p.F549F|COMP_uc010xqj.1_Silent_p.F529F	NM_000095	NP_000086	P49747	COMP_HUMAN	cartilage oligomeric matrix protein precursor	582	Mediates cell survival and induction of the IAP family of survival proteins.|TSP C-terminal.				anti-apoptosis|apoptosis|cell adhesion|limb development	extracellular space|proteinaceous extracellular matrix	calcium ion binding|collagen binding|extracellular matrix structural constituent|heparan sulfate proteoglycan binding|heparin binding				0						ACGTGCCCTCGAAGTCCACGC	0.587													22	45	---	---	---	---	PASS
COMP	1311	broad.mit.edu	37	19	18899070	18899070	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:18899070C>T	uc002nke.2	-	9	962	c.926G>A	c.(925-927)GGA>GAA	p.G309E	COMP_uc002nkd.2_Missense_Mutation_p.G276E|COMP_uc010xqj.1_Missense_Mutation_p.G256E	NM_000095	NP_000086	P49747	COMP_HUMAN	cartilage oligomeric matrix protein precursor	309	TSP type-3 2.				anti-apoptosis|apoptosis|cell adhesion|limb development	extracellular space|proteinaceous extracellular matrix	calcium ion binding|collagen binding|extracellular matrix structural constituent|heparan sulfate proteoglycan binding|heparin binding				0						GCAGGCGTCTCCGATGCCATC	0.507													5	12	---	---	---	---	PASS
COMP	1311	broad.mit.edu	37	19	18899071	18899071	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:18899071C>T	uc002nke.2	-	9	961	c.925G>A	c.(925-927)GGA>AGA	p.G309R	COMP_uc002nkd.2_Missense_Mutation_p.G276R|COMP_uc010xqj.1_Missense_Mutation_p.G256R	NM_000095	NP_000086	P49747	COMP_HUMAN	cartilage oligomeric matrix protein precursor	309	TSP type-3 2.				anti-apoptosis|apoptosis|cell adhesion|limb development	extracellular space|proteinaceous extracellular matrix	calcium ion binding|collagen binding|extracellular matrix structural constituent|heparan sulfate proteoglycan binding|heparin binding				0						CAGGCGTCTCCGATGCCATCG	0.507													5	11	---	---	---	---	PASS
RFXANK	8625	broad.mit.edu	37	19	19309537	19309537	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:19309537G>A	uc002nls.2	+						RFXANK_uc002nlt.2_Intron|RFXANK_uc002nlu.2_Intron|RFXANK_uc002nlv.2_Intron|RFXANK_uc002nlw.2_Intron	NM_003721	NP_003712	O14593	RFXK_HUMAN	regulatory factor X-associated							nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription cofactor activity			ovary(2)	2			Epithelial(12;0.00228)			TGCTGGGTGAGTGGGAGTCGG	0.637													8	25	---	---	---	---	PASS
NDUFA13	51079	broad.mit.edu	37	19	19627014	19627014	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:19627014C>T	uc010xqy.1	+	1	475	c.216C>T	c.(214-216)TTC>TTT	p.F72F	TSSK6_uc002nmq.2_5'Flank|TSSK6_uc002nmr.2_5'Flank|NDUFA13_uc002nms.2_Silent_p.F72F|NDUFA13_uc010xqx.1_Silent_p.F72F	NM_015965	NP_057049	Q9P0J0	NDUAD_HUMAN	NADH dehydrogenase (ubiquinone) 1 alpha	Error:Variant_position_missing_in_Q9P0J0_after_alignment					apoptotic nuclear change|induction of apoptosis by extracellular signals|negative regulation of cell growth|negative regulation of transcription, DNA-dependent|negative regulation of translation|protein import into nucleus|reactive oxygen species metabolic process|respiratory electron transport chain	integral to membrane|mitochondrial respiratory chain complex I|nucleoplasm	ATP binding|NADH dehydrogenase (ubiquinone) activity|protein binding				0					NADH(DB00157)	TAAGTCACTTCCGCCCGGGAC	0.607													7	14	---	---	---	---	PASS
CILP2	148113	broad.mit.edu	37	19	19654548	19654548	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:19654548G>A	uc002nmv.3	+	8	1279	c.1194G>A	c.(1192-1194)GAG>GAA	p.E398E	CILP2_uc002nmw.3_Silent_p.E404E	NM_153221	NP_694953	Q8IUL8	CILP2_HUMAN	cartilage intermediate layer protein 2	398						proteinaceous extracellular matrix	carbohydrate binding|carboxypeptidase activity			ovary(1)	1						AGCTCCCTGAGGACTGTGGTC	0.687													26	49	---	---	---	---	PASS
ATP13A1	57130	broad.mit.edu	37	19	19762519	19762519	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:19762519G>A	uc002nnh.3	-	17	2342	c.2314C>T	c.(2314-2316)CTG>TTG	p.L772L	ATP13A1_uc002nne.2_5'UTR|ATP13A1_uc002nnf.3_Silent_p.L140L|ATP13A1_uc002nng.2_Silent_p.L654L	NM_020410	NP_065143	Q9HD20	AT131_HUMAN	ATPase type 13A1	772	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						GGAGGCTGCAGGATCAGCGTG	0.607													5	19	---	---	---	---	PASS
ZNF14	7561	broad.mit.edu	37	19	19823542	19823542	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:19823542G>A	uc002nnk.1	-	4	702	c.548C>T	c.(547-549)CCA>CTA	p.P183L		NM_021030	NP_066358	P17017	ZNF14_HUMAN	zinc finger protein 14	183	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(3)	3		Renal(1328;0.0474)				TCTTTGAAATGGCTGGTAATA	0.378													8	30	---	---	---	---	PASS
ZNF682	91120	broad.mit.edu	37	19	20117427	20117427	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:20117427T>G	uc002noq.2	-	4	1007	c.884A>C	c.(883-885)AAC>ACC	p.N295T	ZNF682_uc002noo.2_Missense_Mutation_p.N263T|ZNF682_uc002nop.2_Missense_Mutation_p.N263T|ZNF682_uc010eck.2_Missense_Mutation_p.N219T	NM_033196	NP_149973	O95780	ZN682_HUMAN	zinc finger protein 682 isoform 1	295	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2						TGAGTGCCGGTTAAACGCTCT	0.408													13	37	---	---	---	---	PASS
ZNF626	199777	broad.mit.edu	37	19	20807957	20807957	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:20807957G>A	uc002npb.1	-	4	876	c.726C>T	c.(724-726)TCC>TCT	p.S242S	ZNF626_uc002npc.1_Silent_p.S166S	NM_001076675	NP_001070143	Q68DY1	ZN626_HUMAN	zinc finger protein 626 isoform 1	242	C2H2-type 3.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1						TAGTAAGAGTGGAGGAGTGCT	0.393													10	54	---	---	---	---	PASS
ZNF85	7639	broad.mit.edu	37	19	21131543	21131543	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:21131543C>T	uc002npg.3	+						ZNF85_uc010ecn.2_Intron|ZNF85_uc010eco.2_Intron|ZNF85_uc002npi.2_Intron	NM_003429	NP_003420	Q03923	ZNF85_HUMAN	zinc finger protein 85							nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|transcription corepressor activity|zinc ion binding			central_nervous_system(1)	1						ATTTTTGTTTCTTTCAGTTAT	0.313													7	40	---	---	---	---	PASS
ZNF208	7757	broad.mit.edu	37	19	22154265	22154265	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:22154265G>A	uc002nqp.2	-	6	3336	c.3187C>T	c.(3187-3189)CAT>TAT	p.H1063Y	ZNF208_uc002nqo.1_Intron	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				TCTCCAGTATGAATTACCTTA	0.363													12	31	---	---	---	---	PASS
ZNF208	7757	broad.mit.edu	37	19	22170068	22170068	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:22170068C>T	uc002nqp.2	-	3	325	c.176G>A	c.(175-177)GGA>GAA	p.G59E	ZNF208_uc002nqo.1_Missense_Mutation_p.G59E|ZNF208_uc002nqq.2_RNA	NM_007153	NP_009084			zinc finger protein 208											ovary(5)|skin(2)	7		all_lung(12;0.0961)|Lung NSC(12;0.103)				GGACTCTTTTCCTTCCTCCAG	0.413													22	33	---	---	---	---	PASS
ZNF257	113835	broad.mit.edu	37	19	22271130	22271130	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:22271130G>A	uc010ecx.2	+	4	747	c.578G>A	c.(577-579)AGA>AAA	p.R193K	ZNF257_uc010ecy.2_Missense_Mutation_p.R161K	NM_033468	NP_258429	Q9Y2Q1	ZN257_HUMAN	zinc finger protein 257	193	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		all_lung(12;0.0961)|Lung NSC(12;0.103)				CGACATAAGAGAATTCATATT	0.363													8	19	---	---	---	---	PASS
ZNF536	9745	broad.mit.edu	37	19	31025885	31025885	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:31025885G>A	uc002nsu.1	+	3	2440	c.2302G>A	c.(2302-2304)GTG>ATG	p.V768M	ZNF536_uc010edd.1_Missense_Mutation_p.V768M	NM_014717	NP_055532	O15090	ZN536_HUMAN	zinc finger protein 536	768	C2H2-type 8.				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)					TCACCTTAAGGTGCACCTGAG	0.602													11	45	---	---	---	---	PASS
TSHZ3	57616	broad.mit.edu	37	19	31768608	31768608	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:31768608G>A	uc002nsy.3	-	2	2156	c.2091C>T	c.(2089-2091)CCC>CCT	p.P697P		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	697					negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					TGCTGGCTAGGGGCTTCACCA	0.627													4	18	---	---	---	---	PASS
TSHZ3	57616	broad.mit.edu	37	19	31768865	31768865	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:31768865C>T	uc002nsy.3	-	2	1899	c.1834G>A	c.(1834-1836)GAG>AAG	p.E612K		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	612	Potential.				negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					TTCACCAGCTCCTCCATGGCA	0.572													14	41	---	---	---	---	PASS
TSHZ3	57616	broad.mit.edu	37	19	31768866	31768866	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:31768866C>T	uc002nsy.3	-	2	1898	c.1833G>A	c.(1831-1833)GAG>GAA	p.E611E		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	611	Potential.				negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					TCACCAGCTCCTCCATGGCAT	0.572													14	41	---	---	---	---	PASS
TSHZ3	57616	broad.mit.edu	37	19	31770097	31770097	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:31770097C>T	uc002nsy.3	-	2	667	c.602G>A	c.(601-603)AGC>AAC	p.S201N		NM_020856	NP_065907	Q63HK5	TSH3_HUMAN	zinc finger protein 537	201					negative regulation of transcription, DNA-dependent|regulation of respiratory gaseous exchange by neurological system process	growth cone|nucleus	chromatin binding|protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(2)|pancreas(1)|lung(1)	8	Esophageal squamous(110;0.226)					ATAGAGCTTGCTGCTCTGCCG	0.622													6	30	---	---	---	---	PASS
DPY19L3	147991	broad.mit.edu	37	19	32899171	32899171	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:32899171C>T	uc002ntg.2	+	2	188	c.12C>T	c.(10-12)ATC>ATT	p.I4I	DPY19L3_uc002ntf.2_Silent_p.I4I|DPY19L3_uc002nth.1_Silent_p.I4I	NM_207325	NP_997208	Q6ZPD9	D19L3_HUMAN	dpy-19-like 3	4						integral to membrane				ovary(4)	4	Esophageal squamous(110;0.162)					TGATGTCCATCCGGCAAAGAA	0.428													20	42	---	---	---	---	PASS
DPY19L3	147991	broad.mit.edu	37	19	32949041	32949041	+	Silent	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:32949041T>C	uc002ntg.2	+	11	1301	c.1125T>C	c.(1123-1125)TTT>TTC	p.F375F	DPY19L3_uc002nth.1_Silent_p.F375F|DPY19L3_uc002nti.1_RNA	NM_207325	NP_997208	Q6ZPD9	D19L3_HUMAN	dpy-19-like 3	375						integral to membrane				ovary(4)	4	Esophageal squamous(110;0.162)					AACACATATTTAAATTTCTGA	0.348													7	17	---	---	---	---	PASS
KIAA0355	9710	broad.mit.edu	37	19	34818434	34818434	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:34818434G>A	uc002nvd.3	+	4	1673	c.814G>A	c.(814-816)GAA>AAA	p.E272K		NM_014686	NP_055501	O15063	K0355_HUMAN	hypothetical protein LOC9710	272										ovary(1)	1	Esophageal squamous(110;0.162)					CCAGCTAAAAGAACTGAACAT	0.408													10	49	---	---	---	---	PASS
GPI	2821	broad.mit.edu	37	19	34890524	34890524	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:34890524G>A	uc002nvg.1	+	16	1565	c.1462G>A	c.(1462-1464)GGA>AGA	p.G488R	GPI_uc002nvf.2_Missense_Mutation_p.G527R|GPI_uc010xrv.1_Missense_Mutation_p.G499R|GPI_uc010xrw.1_Missense_Mutation_p.G460R|GPI_uc010edl.1_Intron|GPI_uc002nvi.1_Missense_Mutation_p.G151R	NM_000175	NP_000166	P06744	G6PI_HUMAN	glucose phosphate isomerase	488					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)					ATTCATGCTTGGAGCCTTGGT	0.527													15	60	---	---	---	---	PASS
ZNF599	148103	broad.mit.edu	37	19	35251045	35251045	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:35251045G>A	uc010edn.1	-	4	1049	c.661C>T	c.(661-663)CAT>TAT	p.H221Y	ZNF599_uc010edm.1_Missense_Mutation_p.H184Y	NM_001007248	NP_001007249	Q96NL3	ZN599_HUMAN	zinc finger protein 599	221	C2H2-type 1.				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)			ACTCCAGCATGAATCTGTTGA	0.473													53	92	---	---	---	---	PASS
ZNF792	126375	broad.mit.edu	37	19	35449187	35449187	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:35449187G>A	uc002nxh.1	-	4	1959	c.1572C>T	c.(1570-1572)CAC>CAT	p.H524H		NM_175872	NP_787068	Q3KQV3	ZN792_HUMAN	zinc finger protein 792	524	C2H2-type 11.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	all_lung(56;4.18e-08)|Lung NSC(56;6.62e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0849)			GAAGTCTCCGGTGGTTATTGA	0.522													5	23	---	---	---	---	PASS
MAG	4099	broad.mit.edu	37	19	35804284	35804284	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:35804284G>A	uc002nyy.1	+	11	1957	c.1808G>A	c.(1807-1809)GGG>GAG	p.G603E	MAG_uc002nyx.1_3'UTR|MAG_uc010eds.1_Missense_Mutation_p.G578E|MAG_uc002nyz.1_Missense_Mutation_p.G603E	NM_002361	NP_002352	P20916	MAG_HUMAN	myelin associated glycoprotein isoform a	603	Cytoplasmic (Potential).				blood coagulation|cell adhesion|leukocyte migration|negative regulation of axonogenesis|nerve growth factor receptor signaling pathway	integral to membrane|plasma membrane	sugar binding			breast(3)|lung(2)|central_nervous_system(1)|skin(1)	7	all_lung(56;2.37e-08)|Lung NSC(56;3.66e-08)|Esophageal squamous(110;0.162)	Renal(1328;0.242)	Epithelial(14;3.14e-19)|OV - Ovarian serous cystadenocarcinoma(14;1.5e-18)|all cancers(14;1.5e-16)|LUSC - Lung squamous cell carcinoma(66;0.0417)			TCGGACCTGGGGAAACGGCCC	0.632													17	27	---	---	---	---	PASS
FFAR3	2865	broad.mit.edu	37	19	35850282	35850282	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:35850282G>A	uc002nzd.2	+	2	565	c.490G>A	c.(490-492)GGC>AGC	p.G164S	FFAR3_uc010xsu.1_Intron	NM_005304	NP_005295	O14843	FFAR3_HUMAN	free fatty acid receptor 3	164	Extracellular (Potential).					integral to plasma membrane	G-protein coupled receptor activity|lipid binding				0	all_lung(56;9.78e-09)|Lung NSC(56;1.46e-08)|Esophageal squamous(110;0.162)		Epithelial(14;1.29e-19)|OV - Ovarian serous cystadenocarcinoma(14;4.63e-18)|all cancers(14;5.19e-17)|LUSC - Lung squamous cell carcinoma(66;0.0221)			CCACAGCCAGGGCACCAATGG	0.617													9	29	---	---	---	---	PASS
FFAR2	2867	broad.mit.edu	37	19	35941492	35941492	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:35941492G>A	uc002nzg.2	+	2	956	c.876G>A	c.(874-876)CGG>CGA	p.R292R	FFAR2_uc010eea.2_Silent_p.R292R	NM_005306	NP_005297	O15552	FFAR2_HUMAN	free fatty acid receptor 2	292	Cytoplasmic (Potential).					integral to plasma membrane	G-protein coupled receptor activity|lipid binding			central_nervous_system(1)	1	all_lung(56;1.89e-08)|Lung NSC(56;2.9e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			AGGTGCTGCGGAATCAGGGCT	0.577													15	45	---	---	---	---	PASS
KRTDAP	388533	broad.mit.edu	37	19	35978375	35978375	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:35978375G>A	uc002nzh.2	-							NM_207392	NP_997275	P60985	KTDAP_HUMAN	keratinocyte differentiation-associated protein						cell differentiation	extracellular region					0	all_lung(56;1.89e-08)|Lung NSC(56;2.9e-08)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0724)			TCAGCTAGAGGGAGAGGGGTC	0.567													19	57	---	---	---	---	PASS
ATP4A	495	broad.mit.edu	37	19	36051371	36051371	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:36051371G>A	uc002oal.1	-	6	710	c.681C>T	c.(679-681)TCC>TCT	p.S227S	ATP4A_uc010eee.1_5'Flank	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	227	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)	CTGTCAGCGAGGAGTTGTCCA	0.647													15	21	---	---	---	---	PASS
ATP4A	495	broad.mit.edu	37	19	36051372	36051372	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:36051372G>A	uc002oal.1	-	6	709	c.680C>T	c.(679-681)TCC>TTC	p.S227F	ATP4A_uc010eee.1_5'Flank	NM_000704	NP_000695	P20648	ATP4A_HUMAN	hydrogen/potassium-exchanging ATPase 4A	227	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)	TGTCAGCGAGGAGTTGTCCAC	0.647													15	21	---	---	---	---	PASS
ARHGAP33	115703	broad.mit.edu	37	19	36278103	36278103	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:36278103C>T	uc002obs.1	+	21	2238	c.2153C>T	c.(2152-2154)CCC>CTC	p.P718L	ARHGAP33_uc002obt.1_Missense_Mutation_p.P743L|ARHGAP33_uc010eel.2_Missense_Mutation_p.P467L|ARHGAP33_uc002obv.1_Missense_Mutation_p.P467L	NM_052948	NP_443180	O14559	RHG33_HUMAN	sorting nexin 26	766					cell communication|protein transport|signal transduction	intracellular	GTPase activator activity|phosphatidylinositol binding|protein binding			skin(2)|ovary(1)|pancreas(1)	4						CCACCCCCTCCCCTGTCTCTC	0.667													14	16	---	---	---	---	PASS
PRODH2	58510	broad.mit.edu	37	19	36302948	36302948	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:36302948C>T	uc002obx.1	-	5	759	c.741G>A	c.(739-741)AAG>AAA	p.K247K		NM_021232	NP_067055	Q9UF12	PROD2_HUMAN	kidney and liver proline oxidase 1	247					glutamate biosynthetic process|proline catabolic process		proline dehydrogenase activity			ovary(2)	2	all_lung(56;2.87e-07)|Lung NSC(56;4.32e-07)|Esophageal squamous(110;0.162)		LUSC - Lung squamous cell carcinoma(66;0.0515)			AGGCTAGCTCCTTCTGAAATG	0.642													4	16	---	---	---	---	PASS
KIRREL2	84063	broad.mit.edu	37	19	36351482	36351482	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:36351482G>A	uc002ocb.3	+	7	1053	c.841G>A	c.(841-843)GAC>AAC	p.D281N	KIRREL2_uc002obz.3_Missense_Mutation_p.D281N|KIRREL2_uc002oca.3_Missense_Mutation_p.D231N|KIRREL2_uc002occ.3_Missense_Mutation_p.D228N|KIRREL2_uc002ocd.3_Missense_Mutation_p.D278N	NM_199180	NP_954649	Q6UWL6	KIRR2_HUMAN	kin of IRRE-like 2 isoform c	281	Ig-like C2-type 3.|Extracellular (Potential).				cell adhesion	integral to membrane|plasma membrane				ovary(1)|central_nervous_system(1)|skin(1)	3	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)			GGTCGTGGCAGACGCCTCGTT	0.657													9	29	---	---	---	---	PASS
ZFP82	284406	broad.mit.edu	37	19	36884093	36884093	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:36884093G>A	uc002ody.1	-	5	1384	c.1149C>T	c.(1147-1149)CTC>CTT	p.L383L		NM_133466	NP_597723	Q8N141	ZFP82_HUMAN	zinc finger protein 82 homolog	383	C2H2-type 8.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			central_nervous_system(1)|skin(1)	2						TTCTGTGATGGAGAATAAGAT	0.383													18	56	---	---	---	---	PASS
ZNF567	163081	broad.mit.edu	37	19	37210388	37210388	+	Silent	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:37210388A>T	uc010xtl.1	+	6	984	c.762A>T	c.(760-762)ACA>ACT	p.T254T	ZNF567_uc002oeo.1_Silent_p.T254T|ZNF567_uc010xtk.1_Silent_p.T254T|ZNF567_uc002oep.3_Silent_p.T223T|ZNF567_uc002oeq.1_Silent_p.T223T	NM_152603	NP_689816	Q8N184	ZN567_HUMAN	zinc finger protein 567	254	C2H2-type 2.				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)			AAAAACATACATGCAATGAAT	0.353													12	16	---	---	---	---	PASS
ZNF829	374899	broad.mit.edu	37	19	37399311	37399311	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:37399311C>T	uc002ofa.1	-	4	509	c.147G>A	c.(145-147)TGG>TGA	p.W49*	ZNF345_uc002oez.2_Intron|ZNF829_uc002ofb.2_Nonsense_Mutation_p.W49*	NM_001037232	NP_001032309	Q3KNS6	ZN829_HUMAN	zinc finger protein 829	49	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0	Esophageal squamous(110;0.183)		COAD - Colon adenocarcinoma(19;0.114)|Colorectal(19;0.177)			CCAGGCATTCCCATTCCTCTT	0.413													17	64	---	---	---	---	PASS
ZNF781	163115	broad.mit.edu	37	19	38160681	38160681	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:38160681C>T	uc002ogy.2	-	4	1111	c.369G>A	c.(367-369)TGG>TGA	p.W123*	ZNF781_uc002ogz.2_Nonsense_Mutation_p.W118*	NM_152605	NP_689818	Q8N8C0	ZN781_HUMAN	zinc finger protein 781	123	C2H2-type 4; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0						CAAAGGCCTTCCAACATTGCT	0.378													19	30	---	---	---	---	PASS
FAM98C	147965	broad.mit.edu	37	19	38896178	38896178	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:38896178C>T	uc002oin.1	+	6	672	c.653C>T	c.(652-654)TCC>TTC	p.S218F	FAM98C_uc002oio.1_Missense_Mutation_p.S192F|FAM98C_uc010xtz.1_Intron	NM_174905	NP_777565	Q17RN3	FA98C_HUMAN	hypothetical protein LOC147965	218										skin(1)	1	all_cancers(60;3.95e-06)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			GAGTCTCTGTCCCAAAGCCTC	0.577													8	51	---	---	---	---	PASS
RYR1	6261	broad.mit.edu	37	19	38937382	38937382	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:38937382C>T	uc002oit.2	+	9	904	c.774C>T	c.(772-774)CTC>CTT	p.L258L	RYR1_uc002oiu.2_Silent_p.L258L	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	258	MIR 3.|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)	CCCGCTCCCTCTGGAGGCTGG	0.602													5	15	---	---	---	---	PASS
RYR1	6261	broad.mit.edu	37	19	38990384	38990384	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:38990384C>T	uc002oit.2	+	44	7267	c.7137C>T	c.(7135-7137)GCC>GCT	p.A2379A	RYR1_uc002oiu.2_Silent_p.A2379A|RYR1_uc002oiv.1_5'UTR	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	2379	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)	TGCTGGCTGCCATCGAAGAGG	0.697													3	4	---	---	---	---	PASS
RYR1	6261	broad.mit.edu	37	19	39066547	39066547	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:39066547C>T	uc002oit.2	+						RYR1_uc002oiu.2_Intron	NM_000540	NP_000531	P21817	RYR1_HUMAN	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)	CTTTCTCTCTCTCTCTCTGCA	0.498													21	17	---	---	---	---	PASS
RYR1	6261	broad.mit.edu	37	19	39076791	39076791	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:39076791G>A	uc002oit.2	+	104	15059	c.14929G>A	c.(14929-14931)GAG>AAG	p.E4977K	RYR1_uc002oiu.2_Missense_Mutation_p.E4972K	NM_000540	NP_000531	P21817	RYR1_HUMAN	skeletal muscle ryanodine receptor isoform 1	4977					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)	GCATGGCTTCGAGACTCACAC	0.557													7	17	---	---	---	---	PASS
ACTN4	81	broad.mit.edu	37	19	39196706	39196706	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:39196706C>T	uc002oja.1	+	5	566	c.507C>T	c.(505-507)CTC>CTT	p.L169L	ACTN4_uc010egc.1_Silent_p.L169L	NM_004924	NP_004915	O43707	ACTN4_HUMAN	actinin, alpha 4	169	Actin-binding.|CH 2.				platelet activation|platelet degranulation|positive regulation of cellular component movement|positive regulation of sodium:hydrogen antiporter activity|protein transport|regulation of apoptosis	extracellular region|nucleolus|perinuclear region of cytoplasm|platelet alpha granule lumen|protein complex|pseudopodium|ribonucleoprotein complex	actin filament binding|calcium ion binding|integrin binding|nucleoside binding|protein homodimerization activity				0	all_cancers(60;1.57e-05)|Ovarian(47;0.103)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			AGGAAGGGCTCCTTCTCTGGT	0.512													4	23	---	---	---	---	PASS
ACTN4	81	broad.mit.edu	37	19	39196707	39196707	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:39196707C>T	uc002oja.1	+	5	567	c.508C>T	c.(508-510)CTT>TTT	p.L170F	ACTN4_uc010egc.1_Missense_Mutation_p.L170F	NM_004924	NP_004915	O43707	ACTN4_HUMAN	actinin, alpha 4	170	Actin-binding.|CH 2.				platelet activation|platelet degranulation|positive regulation of cellular component movement|positive regulation of sodium:hydrogen antiporter activity|protein transport|regulation of apoptosis	extracellular region|nucleolus|perinuclear region of cytoplasm|platelet alpha granule lumen|protein complex|pseudopodium|ribonucleoprotein complex	actin filament binding|calcium ion binding|integrin binding|nucleoside binding|protein homodimerization activity				0	all_cancers(60;1.57e-05)|Ovarian(47;0.103)		Lung(45;0.00172)|LUSC - Lung squamous cell carcinoma(53;0.00272)			GGAAGGGCTCCTTCTCTGGTG	0.507													4	24	---	---	---	---	PASS
LGALS4	3960	broad.mit.edu	37	19	39292471	39292471	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:39292471G>A	uc002ojg.2	-	10	1119	c.905C>T	c.(904-906)TCG>TTG	p.S302L		NM_006149	NP_006140	P56470	LEG4_HUMAN	galectin-4	302	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)			CTGGAAGGCCGAGAGGCGATG	0.532													19	54	---	---	---	---	PASS
LGALS4	3960	broad.mit.edu	37	19	39292733	39292733	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:39292733C>T	uc002ojg.2	-	9	938	c.724G>A	c.(724-726)GGC>AGC	p.G242S		NM_006149	NP_006140	P56470	LEG4_HUMAN	galectin-4	242	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)			GTACCGTTGCCCATGCGGGGA	0.557													8	27	---	---	---	---	PASS
HNRNPL	3191	broad.mit.edu	37	19	39330769	39330769	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:39330769G>A	uc010xul.1	-	8	1211	c.1200C>T	c.(1198-1200)TTC>TTT	p.F400F	HNRNPL_uc010ege.1_Silent_p.F56F|HNRNPL_uc002ojj.1_Silent_p.F56F|HNRNPL_uc002ojo.1_5'Flank|HNRNPL_uc002ojk.2_Silent_p.F56F|HNRNPL_uc002ojl.2_Silent_p.F56F|HNRNPL_uc010xum.1_Silent_p.F267F|HNRNPL_uc002ojp.1_Silent_p.F56F|HNRNPL_uc010xun.1_3'UTR	NM_001533	NP_001524	P14866	HNRPL_HUMAN	heterogeneous nuclear ribonucleoprotein L	400	RRM 3.				nuclear mRNA splicing, via spliceosome	cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding|transcription regulatory region DNA binding				0	all_cancers(60;6.83e-06)|Ovarian(47;0.0454)		Lung(45;0.00342)|LUSC - Lung squamous cell carcinoma(53;0.00575)			AGAAGACATTGAAGACTCGGT	0.577													11	34	---	---	---	---	PASS
HNRNPL	3191	broad.mit.edu	37	19	39330771	39330771	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:39330771A>G	uc010xul.1	-	8	1209	c.1198T>C	c.(1198-1200)TTC>CTC	p.F400L	HNRNPL_uc010ege.1_Missense_Mutation_p.F56L|HNRNPL_uc002ojj.1_Missense_Mutation_p.F56L|HNRNPL_uc002ojo.1_5'Flank|HNRNPL_uc002ojk.2_Missense_Mutation_p.F56L|HNRNPL_uc002ojl.2_Missense_Mutation_p.F56L|HNRNPL_uc010xum.1_Missense_Mutation_p.F267L|HNRNPL_uc002ojp.1_Missense_Mutation_p.F56L|HNRNPL_uc010xun.1_3'UTR	NM_001533	NP_001524	P14866	HNRPL_HUMAN	heterogeneous nuclear ribonucleoprotein L	400	RRM 3.				nuclear mRNA splicing, via spliceosome	cytoplasm|heterogeneous nuclear ribonucleoprotein complex|nucleoplasm	nucleotide binding|protein binding|RNA binding|transcription regulatory region DNA binding				0	all_cancers(60;6.83e-06)|Ovarian(47;0.0454)		Lung(45;0.00342)|LUSC - Lung squamous cell carcinoma(53;0.00575)			AAGACATTGAAGACTCGGTCA	0.582													11	30	---	---	---	---	PASS
FCGBP	8857	broad.mit.edu	37	19	40362803	40362803	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:40362803G>A	uc002omp.3	-	32	15275	c.15267C>T	c.(15265-15267)TTC>TTT	p.F5089F		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	5089						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)			TGCGGCACAGGAAGGCTTTGT	0.657													15	68	---	---	---	---	PASS
FCGBP	8857	broad.mit.edu	37	19	40433636	40433636	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:40433636C>T	uc002omp.3	-	2	641	c.633G>A	c.(631-633)GGG>GGA	p.G211G		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	211	IgGFc-binding.					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)			TGACCTTTGACCCCGAGAGAT	0.547													13	24	---	---	---	---	PASS
ZNF780A	284323	broad.mit.edu	37	19	40581066	40581066	+	Missense_Mutation	SNP	C	T	T	rs144919039	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:40581066C>T	uc002omy.2	-	6	1508	c.1283G>A	c.(1282-1284)CGT>CAT	p.R428H	ZNF780A_uc002omw.3_Intron|ZNF780A_uc002omz.2_Missense_Mutation_p.R428H|ZNF780A_uc010xvh.1_Missense_Mutation_p.R429H	NM_001010880	NP_001010880	O75290	Z780A_HUMAN	zinc finger protein 780A isoform b	428	C2H2-type 10.				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)					GTGTGCACCACGATTAAAGCC	0.383													32	128	---	---	---	---	PASS
C19orf47	126526	broad.mit.edu	37	19	40828027	40828027	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:40828027G>A	uc002oni.3	-	9	1032	c.1031C>T	c.(1030-1032)CCG>CTG	p.P344L	C19orf47_uc002ong.2_Missense_Mutation_p.P203L|C19orf47_uc002onh.2_Missense_Mutation_p.P277L	NM_178830	NP_849152	Q8N9M1	CS047_HUMAN	hypothetical protein LOC126526	344										ovary(1)|skin(1)	2			Lung(22;0.000636)			CAAGGACTCCGGCTTCCTCTC	0.617													5	26	---	---	---	---	PASS
C19orf47	126526	broad.mit.edu	37	19	40828028	40828028	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:40828028G>A	uc002oni.3	-	9	1031	c.1030C>T	c.(1030-1032)CCG>TCG	p.P344S	C19orf47_uc002ong.2_Missense_Mutation_p.P203S|C19orf47_uc002onh.2_Missense_Mutation_p.P277S	NM_178830	NP_849152	Q8N9M1	CS047_HUMAN	hypothetical protein LOC126526	344										ovary(1)|skin(1)	2			Lung(22;0.000636)			AAGGACTCCGGCTTCCTCTCA	0.612													5	26	---	---	---	---	PASS
CYP2B6	1555	broad.mit.edu	37	19	41510013	41510013	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:41510013G>C	uc002opr.1	+	2	286	c.279G>C	c.(277-279)GAG>GAC	p.E93D	CYP2A7_uc002opo.2_Intron|CYP2B6_uc010xvu.1_Missense_Mutation_p.E53D	NM_000767	NP_000758	P20813	CP2B6_HUMAN	cytochrome P450, family 2, subfamily B,	93					cellular ketone metabolic process|exogenous drug catabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|skin(1)	2			LUSC - Lung squamous cell carcinoma(20;0.00322)		Bupropion(DB01156)|Butalbital(DB00241)|Carbamazepine(DB00564)|Clopidogrel(DB00758)|Cyclophosphamide(DB00531)|Efavirenz(DB00625)|Ifosfamide(DB01181)|Memantine(DB01043)|Meperidine(DB00454)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Midazolam(DB00683)|Nelfinavir(DB00220)|Nevirapine(DB00238)|Nicotine(DB00184)|Orphenadrine(DB01173)|Phenytoin(DB00252)|Propofol(DB00818)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Ticlopidine(DB00208)|Troleandomycin(DB01361)	ACAAGGCTGAGGCCTTCTCTG	0.617													9	47	---	---	---	---	PASS
CYP2B6	1555	broad.mit.edu	37	19	41515196	41515196	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:41515196G>A	uc002opr.1	+	5	725	c.718G>A	c.(718-720)GAA>AAA	p.E240K	CYP2A7_uc002opo.2_Intron|CYP2B6_uc010xvu.1_Intron	NM_000767	NP_000758	P20813	CP2B6_HUMAN	cytochrome P450, family 2, subfamily B,	240					cellular ketone metabolic process|exogenous drug catabolic process|steroid metabolic process|xenobiotic metabolic process	endoplasmic reticulum membrane|microsome	aromatase activity|electron carrier activity|heme binding|oxygen binding			ovary(1)|skin(1)	2			LUSC - Lung squamous cell carcinoma(20;0.00322)		Bupropion(DB01156)|Butalbital(DB00241)|Carbamazepine(DB00564)|Clopidogrel(DB00758)|Cyclophosphamide(DB00531)|Efavirenz(DB00625)|Ifosfamide(DB01181)|Memantine(DB01043)|Meperidine(DB00454)|Mephenytoin(DB00532)|Methadone(DB00333)|Methylphenobarbital(DB00849)|Midazolam(DB00683)|Nelfinavir(DB00220)|Nevirapine(DB00238)|Nicotine(DB00184)|Orphenadrine(DB01173)|Phenytoin(DB00252)|Propofol(DB00818)|Ritonavir(DB00503)|Selegiline(DB01037)|Sertraline(DB01104)|Ticlopidine(DB00208)|Troleandomycin(DB01361)	AAACCTGCAGGAAATCAATGC	0.517													16	73	---	---	---	---	PASS
CEACAM7	1087	broad.mit.edu	37	19	42187819	42187819	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42187819G>A	uc002ori.1	-	3	605	c.603C>T	c.(601-603)CTC>CTT	p.L201L	CEACAM7_uc010ehx.2_Silent_p.L201L|CEACAM7_uc010ehy.1_Intron	NM_006890	NP_008821	Q14002	CEAM7_HUMAN	carcinoembryonic antigen-related cell adhesion	201	Ig-like C2-type.					anchored to membrane|integral to membrane|plasma membrane				ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(3;0.0027)|all cancers(3;0.00979)|Epithelial(262;0.0366)		TGAGTAGAACGAGGGTCCTGT	0.537													31	85	---	---	---	---	PASS
CEACAM7	1087	broad.mit.edu	37	19	42191133	42191133	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42191133C>T	uc002ori.1	-	2	86	c.84G>A	c.(82-84)TGG>TGA	p.W28*	CEACAM7_uc010ehx.2_Nonsense_Mutation_p.W28*|CEACAM7_uc010ehy.1_Nonsense_Mutation_p.W28*	NM_006890	NP_008821	Q14002	CEAM7_HUMAN	carcinoembryonic antigen-related cell adhesion	28						anchored to membrane|integral to membrane|plasma membrane				ovary(2)	2				OV - Ovarian serous cystadenocarcinoma(3;0.0027)|all cancers(3;0.00979)|Epithelial(262;0.0366)		TTGGCAGGTTCCAGAAGGTTA	0.507													39	38	---	---	---	---	PASS
CEACAM5	1048	broad.mit.edu	37	19	42231147	42231147	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42231147G>A	uc002ork.2	+						CEACAM5_uc002orj.1_Intron|CEACAM5_uc002orl.2_Intron	NM_004363	NP_004354	P06731	CEAM5_HUMAN	carcinoembryonic antigen-related cell adhesion							anchored to membrane|basolateral plasma membrane|integral to plasma membrane				skin(2)	2				OV - Ovarian serous cystadenocarcinoma(3;0.00278)|all cancers(3;0.00625)|Epithelial(262;0.0379)|GBM - Glioblastoma multiforme(1328;0.142)		CATGACGGACGATTCAGCATC	0.507													47	196	---	---	---	---	PASS
CEACAM3	1084	broad.mit.edu	37	19	42301575	42301575	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42301575C>T	uc002orn.1	+	2	195	c.119C>T	c.(118-120)TCC>TTC	p.S40F	CEACAM3_uc010eia.1_Missense_Mutation_p.S40F|CEACAM3_uc002oro.1_RNA	NM_001815	NP_001806	P40198	CEAM3_HUMAN	carcinoembryonic antigen-related cell adhesion	40	Ig-like V-type.|Extracellular (Potential).					integral to membrane				skin(1)	1						ACTATTGAATCCATGCCGCTC	0.517													40	60	---	---	---	---	PASS
DMRTC2	63946	broad.mit.edu	37	19	42355712	42355712	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42355712C>T	uc002ors.2	+	9	1135	c.1052C>T	c.(1051-1053)CCC>CTC	p.P351L	DMRTC2_uc002orr.1_3'UTR|DMRTC2_uc010xwe.1_Missense_Mutation_p.P402L	NM_001040283	NP_001035373	Q8IXT2	DMRTD_HUMAN	DMRT-like family C2	351	Pro-rich.				cell differentiation|sex differentiation	nucleus	DNA binding|metal ion binding|sequence-specific DNA binding transcription factor activity				0						AGCCCAGCCCCCTCTGTTGCT	0.597													5	31	---	---	---	---	PASS
GRIK5	2901	broad.mit.edu	37	19	42526215	42526215	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42526215G>A	uc002osj.1	-						GRIK5_uc002osi.1_Intron|GRIK5_uc010eib.1_Intron	NM_002088	NP_002079	Q16478	GRIK5_HUMAN	glutamate receptor KA2 precursor							cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity				0		Prostate(69;0.059)			L-Glutamic Acid(DB00142)	GGCCCTGTGGGGAGAGGGAGT	0.657													3	7	---	---	---	---	PASS
GRIK5	2901	broad.mit.edu	37	19	42563519	42563519	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42563519G>A	uc002osj.1	-	5	704	c.669C>T	c.(667-669)TCC>TCT	p.S223S	GRIK5_uc010eib.1_Silent_p.S142S	NM_002088	NP_002079	Q16478	GRIK5_HUMAN	glutamate receptor KA2 precursor	223	Extracellular (Potential).					cell junction|postsynaptic membrane	extracellular-glutamate-gated ion channel activity|kainate selective glutamate receptor activity				0		Prostate(69;0.059)			L-Glutamic Acid(DB00142)	GGATGAGGTGGGAGATGGAGG	0.587													16	36	---	---	---	---	PASS
ZNF526	116115	broad.mit.edu	37	19	42729860	42729860	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42729860C>T	uc002osz.1	+	3	1461	c.1305C>T	c.(1303-1305)CCC>CCT	p.P435P		NM_133444	NP_597701	Q8TF50	ZN526_HUMAN	zinc finger protein 526	435	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0704)				CACCACCACCCCCTGCCCCAC	0.706													3	5	---	---	---	---	PASS
ZNF526	116115	broad.mit.edu	37	19	42729861	42729861	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42729861C>T	uc002osz.1	+	3	1462	c.1306C>T	c.(1306-1308)CCT>TCT	p.P436S		NM_133444	NP_597701	Q8TF50	ZN526_HUMAN	zinc finger protein 526	436	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0704)				ACCACCACCCCCTGCCCCACC	0.706													3	5	---	---	---	---	PASS
TMEM145	284339	broad.mit.edu	37	19	42824508	42824508	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42824508C>T	uc002otk.1	+	13	1165	c.1113C>T	c.(1111-1113)TTC>TTT	p.F371F		NM_173633	NP_775904	Q8NBT3	TM145_HUMAN	transmembrane protein 145	371						integral to membrane					0		Prostate(69;0.00682)				TTGCCAATTTCGGCATCCCCA	0.562													10	42	---	---	---	---	PASS
IRGC	56269	broad.mit.edu	37	19	44222962	44222962	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:44222962G>A	uc002oxh.2	+	2	399	c.252G>A	c.(250-252)GCG>GCA	p.A84A		NM_019612	NP_062558	Q6NXR0	IIGP5_HUMAN	immunity-related GTPase family, cinema	84						membrane	GTP binding|hydrolase activity, acting on acid anhydrides			ovary(1)|central_nervous_system(1)|skin(1)	3		Prostate(69;0.0435)				ACCCTGGCGCGGCTCTCACGG	0.682													4	20	---	---	---	---	PASS
KCNN4	3783	broad.mit.edu	37	19	44271811	44271811	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:44271811G>A	uc002oxl.2	-	8	1564	c.1168C>T	c.(1168-1170)CGG>TGG	p.R390W	KCNN4_uc010eiz.2_Missense_Mutation_p.R314W	NM_002250	NP_002241	O15554	KCNN4_HUMAN	intermediate conductance calcium-activated	390					defense response	voltage-gated potassium channel complex	calcium-activated potassium channel activity|calmodulin binding			ovary(2)	2		Prostate(69;0.0352)			Clotrimazole(DB00257)|Halothane(DB01159)|Quinine(DB00468)	TCCAGGGCCCGGTGTGAGCTG	0.622													7	36	---	---	---	---	PASS
ZNF404	342908	broad.mit.edu	37	19	44378083	44378083	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:44378083C>T	uc002oxs.3	-	2	283	c.274G>A	c.(274-276)GAA>AAA	p.E92K		NM_001033719	NP_001028891	Q494X3	ZN404_HUMAN	zinc finger protein 404	95					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0		Prostate(69;0.0352)				CTCCCAAATTCAATTGTGTAC	0.338													44	66	---	---	---	---	PASS
ZNF221	7638	broad.mit.edu	37	19	44470564	44470564	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:44470564C>T	uc002oxx.2	+	6	1238	c.910C>T	c.(910-912)CAT>TAT	p.H304Y	ZNF221_uc010ejb.1_Missense_Mutation_p.H304Y|ZNF221_uc010xws.1_Missense_Mutation_p.H304Y	NM_013359	NP_037491	Q9UK13	ZN221_HUMAN	zinc finger protein 221	304	C2H2-type 5.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		Prostate(69;0.0352)				TCAGAGAATCCATACTGGGGA	0.403													22	95	---	---	---	---	PASS
ZNF221	7638	broad.mit.edu	37	19	44471222	44471222	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:44471222C>T	uc002oxx.2	+	6	1896	c.1568C>T	c.(1567-1569)TCC>TTC	p.S523F	ZNF221_uc010ejb.1_Missense_Mutation_p.S523F|ZNF221_uc010xws.1_Missense_Mutation_p.S523F	NM_013359	NP_037491	Q9UK13	ZN221_HUMAN	zinc finger protein 221	523	C2H2-type 13.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			skin(1)	1		Prostate(69;0.0352)				CAACTTCATTCCCATCAGACA	0.428													9	50	---	---	---	---	PASS
PVR	5817	broad.mit.edu	37	19	45153245	45153245	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:45153245G>C	uc002ozm.2	+	3	891	c.592G>C	c.(592-594)GGC>CGC	p.G198R	PVR_uc010ejs.2_Missense_Mutation_p.G198R|PVR_uc010xxb.1_Missense_Mutation_p.G198R|PVR_uc010xxc.1_Missense_Mutation_p.G198R|PVR_uc002ozn.2_Missense_Mutation_p.G143R	NM_006505	NP_006496	P15151	PVR_HUMAN	poliovirus receptor isoform alpha	198	Extracellular (Potential).|Ig-like C2-type 1.				adherens junction organization|cell adhesion|cell junction assembly|interspecies interaction between organisms|positive regulation of natural killer cell mediated cytotoxicity directed against tumor cell target|susceptibility to natural killer cell mediated cytotoxicity|susceptibility to T cell mediated cytotoxicity	cell junction|cell surface|cytoplasm|extracellular space|integral to membrane|nucleus	cell adhesion molecule binding|receptor activity				0	Lung NSC(12;0.00608)|all_lung(12;0.0148)	Medulloblastoma(540;0.0425)|Ovarian(192;0.0728)|Prostate(69;0.081)|all_neural(266;0.112)		Epithelial(262;0.000601)		GTTCCTGTCTGGCACAGTCAC	0.622													10	14	---	---	---	---	PASS
EXOC3L2	90332	broad.mit.edu	37	19	45716584	45716584	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:45716584G>A	uc002pay.1	-	10	1014	c.973C>T	c.(973-975)CGT>TGT	p.R325C		NM_138568	NP_612635	Q2M3D2	EX3L2_HUMAN	exocyst complex component 3-like 2	325										ovary(1)	1		all_neural(266;0.224)|Ovarian(192;0.231)		OV - Ovarian serous cystadenocarcinoma(262;0.00883)		CGCAGGCCACGGATGTCGAGG	0.672													8	9	---	---	---	---	PASS
VASP	7408	broad.mit.edu	37	19	46021010	46021010	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:46021010C>T	uc002pcg.2	+	2	437	c.95C>T	c.(94-96)GCC>GTC	p.A32V	VASP_uc010eki.2_Missense_Mutation_p.P16S|VASP_uc002pci.2_Missense_Mutation_p.A19V	NM_003370	NP_003361	P50552	VASP_HUMAN	vasodilator-stimulated phosphoprotein	32	WH1.				axon guidance|cell junction assembly|T cell receptor signaling pathway	actin cytoskeleton|cytosol|filopodium membrane|focal adhesion|lamellipodium membrane	actin binding|profilin binding|SH3 domain binding				0		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0145)|GBM - Glioblastoma multiforme(486;0.154)		GGTCCCCAGGCCTTCAGCCGC	0.647													14	23	---	---	---	---	PASS
VASP	7408	broad.mit.edu	37	19	46021011	46021011	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:46021011C>T	uc002pcg.2	+	2	438	c.96C>T	c.(94-96)GCC>GCT	p.A32A	VASP_uc010eki.2_Missense_Mutation_p.P16L|VASP_uc002pci.2_Silent_p.A19A	NM_003370	NP_003361	P50552	VASP_HUMAN	vasodilator-stimulated phosphoprotein	32	WH1.				axon guidance|cell junction assembly|T cell receptor signaling pathway	actin cytoskeleton|cytosol|filopodium membrane|focal adhesion|lamellipodium membrane	actin binding|profilin binding|SH3 domain binding				0		Ovarian(192;0.051)|all_neural(266;0.112)		OV - Ovarian serous cystadenocarcinoma(262;0.0145)|GBM - Glioblastoma multiforme(486;0.154)		GTCCCCAGGCCTTCAGCCGCG	0.647													13	22	---	---	---	---	PASS
RSPH6A	81492	broad.mit.edu	37	19	46307946	46307946	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:46307946G>A	uc002pdm.2	-	3	1360	c.1217C>T	c.(1216-1218)TCC>TTC	p.S406F	RSPH6A_uc002pdl.2_Missense_Mutation_p.S142F	NM_030785	NP_110412	Q9H0K4	RSH6A_HUMAN	radial spokehead-like 1	406						intracellular				ovary(1)|central_nervous_system(1)	2						CTTCCATACGGACTTAGGGAC	0.448													4	14	---	---	---	---	PASS
SYMPK	8189	broad.mit.edu	37	19	46355740	46355740	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:46355740A>T	uc002pdn.2	-	4	470	c.225T>A	c.(223-225)GAT>GAA	p.D75E	SYMPK_uc002pdo.1_Missense_Mutation_p.D75E|SYMPK_uc002pdp.1_Missense_Mutation_p.D75E|SYMPK_uc002pdq.1_Missense_Mutation_p.D75E	NM_004819	NP_004810	Q92797	SYMPK_HUMAN	symplekin	75	Interaction with HSF1.				cell adhesion|mRNA processing	cytoplasm|cytoskeleton|nucleoplasm|tight junction	protein binding			ovary(1)	1		all_neural(266;0.0299)|Ovarian(192;0.0308)		OV - Ovarian serous cystadenocarcinoma(262;0.00509)|GBM - Glioblastoma multiforme(486;0.0593)		AGTCACTCACATCCAGGAAGT	0.507													24	31	---	---	---	---	PASS
IRF2BP1	26145	broad.mit.edu	37	19	46388122	46388122	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:46388122G>A	uc002pds.1	-	1	1255	c.911C>T	c.(910-912)CCG>CTG	p.P304L		NM_015649	NP_056464	Q8IU81	I2BP1_HUMAN	interferon regulatory factor 2 binding protein	304					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus					0		all_neural(266;0.113)|Ovarian(192;0.127)		OV - Ovarian serous cystadenocarcinoma(262;0.00442)|GBM - Glioblastoma multiforme(486;0.0402)|Epithelial(262;0.231)		TGCCTTGCCCGGCTCCCGCAG	0.617													5	14	---	---	---	---	PASS
NOVA2	4858	broad.mit.edu	37	19	46443310	46443310	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:46443310C>T	uc002pdv.2	-	4	1338	c.1290G>A	c.(1288-1290)GTG>GTA	p.V430V		NM_002516	NP_002507	Q9UNW9	NOVA2_HUMAN	neuro-oncological ventral antigen 2	430	KH 3.					nucleus	RNA binding				0		all_neural(266;0.113)|Ovarian(192;0.127)		OV - Ovarian serous cystadenocarcinoma(262;0.00245)|GBM - Glioblastoma multiforme(486;0.0782)|Epithelial(262;0.179)		CCTGGTACTCCACCAACGTCT	0.662													35	53	---	---	---	---	PASS
IGFL2	147920	broad.mit.edu	37	19	46664061	46664061	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:46664061C>A	uc010xxv.1	+	3	300	c.264C>A	c.(262-264)AAC>AAA	p.N88K	IGFL2_uc002peb.2_Missense_Mutation_p.N99K	NM_001135113	NP_001128585	Q6UWQ7	IGFL2_HUMAN	IGF-like family member 2 isoform b	88						extracellular region	protein binding				0		Ovarian(192;0.0908)|all_neural(266;0.113)		OV - Ovarian serous cystadenocarcinoma(262;0.00493)|GBM - Glioblastoma multiforme(486;0.031)|Epithelial(262;0.247)		GCCTCACAAACGATTTTGTTG	0.557													5	143	---	---	---	---	PASS
CCDC8	83987	broad.mit.edu	37	19	46914555	46914555	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:46914555G>A	uc002pep.2	-	1	2365	c.1513C>T	c.(1513-1515)CTG>TTG	p.L505L		NM_032040	NP_114429	Q9H0W5	CCDC8_HUMAN	coiled-coil domain containing 8	505						plasma membrane				ovary(3)	3				OV - Ovarian serous cystadenocarcinoma(262;4.66e-05)|all cancers(93;0.000582)|Epithelial(262;0.00428)|GBM - Glioblastoma multiforme(486;0.0421)		CTCTTGGGCAGGGTTGGCAAC	0.622													8	34	---	---	---	---	PASS
CCDC8	83987	broad.mit.edu	37	19	46915085	46915085	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:46915085C>T	uc002pep.2	-	1	1835	c.983G>A	c.(982-984)GGG>GAG	p.G328E		NM_032040	NP_114429	Q9H0W5	CCDC8_HUMAN	coiled-coil domain containing 8	328						plasma membrane				ovary(3)	3				OV - Ovarian serous cystadenocarcinoma(262;4.66e-05)|all cancers(93;0.000582)|Epithelial(262;0.00428)|GBM - Glioblastoma multiforme(486;0.0421)		AGCCTCTGCCCCCTGGTCAGC	0.622													39	37	---	---	---	---	PASS
GRLF1	2909	broad.mit.edu	37	19	47424480	47424480	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:47424480C>T	uc010ekv.2	+	1	2548	c.2548C>T	c.(2548-2550)CGG>TGG	p.R850W		NM_004491	NP_004482	Q9NRY4	RHG35_HUMAN	glucocorticoid receptor DNA binding factor 1	850					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)		CAGAAAGAGCCGGTTGGTTCA	0.418													12	59	---	---	---	---	PASS
DHX34	9704	broad.mit.edu	37	19	47885230	47885230	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:47885230C>T	uc010xyn.1	+						DHX34_uc010xyo.1_Intron	NM_014681	NP_055496	Q14147	DHX34_HUMAN	DEAH (Asp-Glu-Ala-His) box polypeptide 34							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)		TCCTTTTCCTCCCTTAGGGGC	0.602													10	23	---	---	---	---	PASS
MEIS3	56917	broad.mit.edu	37	19	47912413	47912413	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:47912413C>T	uc002pgu.2	-	8	1248	c.801G>A	c.(799-801)GGG>GGA	p.G267G	MEIS3_uc010xyp.1_5'Flank|MEIS3_uc002pgo.2_Silent_p.G66G|MEIS3_uc002pgp.2_Silent_p.G99G|MEIS3_uc002pgq.2_Silent_p.G348G|MEIS3_uc002pgr.2_Silent_p.G135G|MEIS3_uc002pgt.2_Silent_p.G250G|MEIS3_uc002pgv.2_Silent_p.G250G|MEIS3_uc002pgs.2_Silent_p.G267G|MEIS3_uc010eld.2_Silent_p.G267G	NM_001009813	NP_001009813	Q99687	MEIS3_HUMAN	Meis1, myeloid ecotropic viral integration site	267	Homeobox; TALE-type.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0		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;0.000198)|OV - Ovarian serous cystadenocarcinoma(262;0.000439)|Epithelial(262;0.0113)|GBM - Glioblastoma multiforme(486;0.0223)		TGGGGAAGATCCCCCTCTTCT	0.612													17	25	---	---	---	---	PASS
NAPA	8775	broad.mit.edu	37	19	47991584	47991584	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:47991584G>A	uc002pha.1	-	11	1149	c.849C>T	c.(847-849)ATC>ATT	p.I283I	uc002pgz.1_Intron|NAPA_uc002phb.1_Silent_p.I244I|NAPA_uc002phc.1_Silent_p.I170I|NAPA_uc002phd.1_Silent_p.I283I	NM_003827	NP_003818	P54920	SNAA_HUMAN	N-ethylmaleimide-sensitive factor attachment	283					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)		TGGTCTTCTTGATGCGCAGCA	0.637													12	22	---	---	---	---	PASS
SULT2A1	6822	broad.mit.edu	37	19	48387052	48387052	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:48387052G>A	uc002phr.2	-							NM_003167	NP_003158	Q06520	ST2A1_HUMAN	bile-salt sulfotransferase 2A1						3'-phosphoadenosine 5'-phosphosulfate metabolic process|bile acid catabolic process|cellular lipid metabolic process|digestion|sulfation|xenobiotic metabolic process	cytosol	bile-salt sulfotransferase activity			ovary(1)|pancreas(1)	2		all_cancers(25;3.02e-09)|all_lung(116;6.48e-07)|all_epithelial(76;7.35e-07)|Lung NSC(112;1.56e-06)|all_neural(266;0.0146)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;0.000254)|all cancers(93;0.000545)|Epithelial(262;0.0217)|GBM - Glioblastoma multiforme(486;0.0552)		CCTGGAAAAAGAAGGAAAAAA	0.303													10	16	---	---	---	---	PASS
PLA2G4C	8605	broad.mit.edu	37	19	48601396	48601396	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:48601396C>T	uc002phx.2	-	6	966	c.568G>A	c.(568-570)GAG>AAG	p.E190K	PLA2G4C_uc002phw.2_Missense_Mutation_p.E125K|PLA2G4C_uc010elr.2_Missense_Mutation_p.E190K|PLA2G4C_uc010xzd.1_Missense_Mutation_p.E200K|PLA2G4C_uc002phy.3_Missense_Mutation_p.G190S	NM_003706	NP_003697	Q9UP65	PA24C_HUMAN	phospholipase A2, group IVC isoform 1 precursor	190	PLA2c.				arachidonic acid metabolic process|glycerophospholipid catabolic process|inflammatory response|intracellular signal transduction|parturition	cytosol|membrane	calcium-independent phospholipase A2 activity|phospholipid binding			ovary(1)|skin(1)	2		all_cancers(25;2.84e-05)|all_lung(116;4.62e-05)|Lung NSC(112;7.61e-05)|all_epithelial(76;0.000192)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;8.09e-05)|all cancers(93;0.000517)|Epithelial(262;0.0135)|GBM - Glioblastoma multiforme(486;0.0717)		GTTTGCTTACCTGGTGCTCTT	0.527													17	41	---	---	---	---	PASS
PLA2G4C	8605	broad.mit.edu	37	19	48603039	48603039	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:48603039C>T	uc002phx.2	-	5	734	c.336G>A	c.(334-336)CAG>CAA	p.Q112Q	PLA2G4C_uc002phw.2_Silent_p.Q47Q|PLA2G4C_uc010elr.2_Silent_p.Q112Q|PLA2G4C_uc010xzd.1_Silent_p.Q122Q|PLA2G4C_uc002phy.3_Silent_p.Q112Q	NM_003706	NP_003697	Q9UP65	PA24C_HUMAN	phospholipase A2, group IVC isoform 1 precursor	112	PLA2c.				arachidonic acid metabolic process|glycerophospholipid catabolic process|inflammatory response|intracellular signal transduction|parturition	cytosol|membrane	calcium-independent phospholipase A2 activity|phospholipid binding			ovary(1)|skin(1)	2		all_cancers(25;2.84e-05)|all_lung(116;4.62e-05)|Lung NSC(112;7.61e-05)|all_epithelial(76;0.000192)|all_neural(266;0.0506)|Ovarian(192;0.113)		OV - Ovarian serous cystadenocarcinoma(262;8.09e-05)|all cancers(93;0.000517)|Epithelial(262;0.0135)|GBM - Glioblastoma multiforme(486;0.0717)		AGTCCCACTCCTGTCGGGTAA	0.498													52	94	---	---	---	---	PASS
LIG1	3978	broad.mit.edu	37	19	48636269	48636269	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:48636269G>C	uc002pia.1	-	18	1815	c.1695C>G	c.(1693-1695)TGC>TGG	p.C565W	LIG1_uc010xze.1_Missense_Mutation_p.C258W|LIG1_uc002phz.1_RNA|LIG1_uc002pib.1_RNA|LIG1_uc010xzf.1_Missense_Mutation_p.C497W|LIG1_uc010xzg.1_Missense_Mutation_p.C534W	NM_000234	NP_000225	P18858	DNLI1_HUMAN	DNA ligase I	565					anatomical structure morphogenesis|base-excision repair|cell division|DNA ligation involved in DNA repair|DNA strand elongation involved in DNA replication|double-strand break repair via homologous recombination|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	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding			large_intestine(2)|lung(1)	3		all_epithelial(76;3.1e-06)|all_lung(116;4.39e-06)|Lung NSC(112;8.96e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;8.45e-05)|all cancers(93;0.000423)|Epithelial(262;0.0177)|GBM - Glioblastoma multiforme(486;0.0329)	Bleomycin(DB00290)	ATTTGTATTCGCAGGTGAAAG	0.567								NER					71	88	---	---	---	---	PASS
LIG1	3978	broad.mit.edu	37	19	48646813	48646813	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:48646813C>T	uc002pia.1	-	11	1021	c.901G>A	c.(901-903)GAG>AAG	p.E301K	LIG1_uc010xze.1_5'UTR|LIG1_uc002phz.1_RNA|LIG1_uc002pib.1_RNA|LIG1_uc010xzf.1_Missense_Mutation_p.E233K|LIG1_uc010xzg.1_Missense_Mutation_p.E270K|LIG1_uc010xzh.1_RNA	NM_000234	NP_000225	P18858	DNLI1_HUMAN	DNA ligase I	301					anatomical structure morphogenesis|base-excision repair|cell division|DNA ligation involved in DNA repair|DNA strand elongation involved in DNA replication|double-strand break repair via homologous recombination|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	ATP binding|DNA binding|DNA ligase (ATP) activity|metal ion binding			large_intestine(2)|lung(1)	3		all_epithelial(76;3.1e-06)|all_lung(116;4.39e-06)|Lung NSC(112;8.96e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)|Breast(70;0.203)		OV - Ovarian serous cystadenocarcinoma(262;8.45e-05)|all cancers(93;0.000423)|Epithelial(262;0.0177)|GBM - Glioblastoma multiforme(486;0.0329)	Bleomycin(DB00290)	GCAGACACCTCCTCGATCTTC	0.597								NER					23	34	---	---	---	---	PASS
CYTH2	9266	broad.mit.edu	37	19	48975678	48975678	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:48975678A>C	uc002pjj.3	+	4	631	c.331A>C	c.(331-333)ATC>CTC	p.I111L	uc002pjg.2_5'Flank|CYTH2_uc010xzr.1_Missense_Mutation_p.I111L|CYTH2_uc002pji.2_RNA	NM_017457	NP_059431	Q99418	CYH2_HUMAN	cytohesin 2 isoform 1	111	SEC7.				actin cytoskeleton organization|endocytosis|regulation of ARF protein signal transduction|regulation of cell adhesion	cytoplasm|membrane fraction|plasma membrane	ARF guanyl-nucleotide exchange factor activity|protein binding			ovary(1)	1						CAAGACAGCCATCGGGGACTA	0.637													7	13	---	---	---	---	PASS
NTN5	126147	broad.mit.edu	37	19	49167065	49167065	+	Missense_Mutation	SNP	G	A	A	rs149409502		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49167065G>A	uc002pkb.2	-	5	1073	c.977C>T	c.(976-978)CCA>CTA	p.P326L	SEC1_uc010xzv.1_Intron|SEC1_uc002pka.2_Intron|SEC1_uc010xzw.1_Intron|SEC1_uc010ema.2_Intron|NTN5_uc002pkc.2_Missense_Mutation_p.P326L	NM_145807	NP_665806	Q8WTR8	NET5_HUMAN	netrin 5 precursor	326						extracellular region				large_intestine(1)|pancreas(1)	2						TGTTGCCTCTGGAATTCCTGT	0.547													5	19	---	---	---	---	PASS
TULP2	7288	broad.mit.edu	37	19	49391367	49391367	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49391367G>A	uc002pkz.2	-	8	939	c.788C>T	c.(787-789)TCC>TTC	p.S263F		NM_003323	NP_003314	O00295	TULP2_HUMAN	tubby like protein 2	263					visual perception	cytoplasm|extracellular region				ovary(1)|kidney(1)|skin(1)	3		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;0.000259)|all cancers(93;0.000435)|Epithelial(262;0.0221)|GBM - Glioblastoma multiforme(486;0.0234)		AGGGCAGGGGGAGCGGATTGC	0.637													9	24	---	---	---	---	PASS
TULP2	7288	broad.mit.edu	37	19	49391432	49391432	+	Silent	SNP	G	A	A	rs142980256		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49391432G>A	uc002pkz.2	-	8	874	c.723C>T	c.(721-723)GCC>GCT	p.A241A		NM_003323	NP_003314	O00295	TULP2_HUMAN	tubby like protein 2	241					visual perception	cytoplasm|extracellular region				ovary(1)|kidney(1)|skin(1)	3		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;0.000259)|all cancers(93;0.000435)|Epithelial(262;0.0221)|GBM - Glioblastoma multiforme(486;0.0234)		CGCCTTTCAGGGCCTTGGACA	0.592													10	29	---	---	---	---	PASS
FTL	2512	broad.mit.edu	37	19	49469080	49469080	+	Silent	SNP	C	T	T	rs143106340		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49469080C>T	uc002plo.2	+	2	355	c.156C>T	c.(154-156)TTC>TTT	p.F52F	FTL_uc002pln.1_Silent_p.F52F	NM_000146	NP_000137	P02792	FRIL_HUMAN	ferritin, light polypeptide	52	Ferritin-like diiron.				cell death|cellular iron ion homeostasis|cellular membrane organization|iron ion transport|post-Golgi vesicle-mediated transport	cytosol|intracellular ferritin complex	ferric iron binding|identical protein binding|oxidoreductase 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;0.000152)|all cancers(93;0.000435)|GBM - Glioblastoma multiforme(486;0.0171)|Epithelial(262;0.0267)	Iron Dextran(DB00893)	GCCACTTCTTCCGCGAATTGG	0.587													11	33	---	---	---	---	PASS
PPFIA3	8541	broad.mit.edu	37	19	49631724	49631724	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49631724G>A	uc002pmr.2	+	3	673	c.341G>A	c.(340-342)CGG>CAG	p.R114Q	PPFIA3_uc010yai.1_RNA|PPFIA3_uc010emt.2_Missense_Mutation_p.R38Q|PPFIA3_uc010yaj.1_RNA|PPFIA3_uc002pms.2_5'Flank	NM_003660	NP_003651	O75145	LIPA3_HUMAN	PTPRF interacting protein alpha 3	114	Potential.					cell surface|cytoplasm	protein binding			lung(1)	1		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.36e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000203)|GBM - Glioblastoma multiforme(486;0.00307)|Epithelial(262;0.00677)		AACAACACGCGGGTGAGGGGT	0.602													12	16	---	---	---	---	PASS
PPFIA3	8541	broad.mit.edu	37	19	49631725	49631725	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49631725G>A	uc002pmr.2	+	3	674	c.342G>A	c.(340-342)CGG>CGA	p.R114R	PPFIA3_uc010yai.1_RNA|PPFIA3_uc010emt.2_Silent_p.R38R|PPFIA3_uc010yaj.1_RNA|PPFIA3_uc002pms.2_5'Flank	NM_003660	NP_003651	O75145	LIPA3_HUMAN	PTPRF interacting protein alpha 3	114	Potential.					cell surface|cytoplasm	protein binding			lung(1)	1		all_lung(116;3.16e-06)|Lung NSC(112;6.25e-06)|all_neural(266;0.0189)|Ovarian(192;0.0392)		all cancers(93;2.36e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000203)|GBM - Glioblastoma multiforme(486;0.00307)|Epithelial(262;0.00677)		ACAACACGCGGGTGAGGGGTG	0.602													12	15	---	---	---	---	PASS
TRPM4	54795	broad.mit.edu	37	19	49705403	49705403	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49705403G>A	uc002pmw.2	+						TRPM4_uc010emu.2_Intron|TRPM4_uc010yak.1_Intron|TRPM4_uc002pmx.2_Intron|TRPM4_uc010emv.2_Intron|TRPM4_uc010yal.1_Intron|TRPM4_uc002pmy.2_Intron	NM_017636	NP_060106	Q8TD43	TRPM4_HUMAN	transient receptor potential cation channel,						dendritic cell chemotaxis|positive regulation of canonical Wnt receptor signaling pathway|positive regulation of cell proliferation|protein sumoylation|regulation of T cell cytokine production	endoplasmic reticulum|Golgi apparatus|integral to membrane|plasma membrane	ATP binding|calcium activated cation channel activity|calmodulin binding			ovary(1)|central_nervous_system(1)	2		all_lung(116;8.54e-05)|Lung NSC(112;0.000139)|all_neural(266;0.0506)|Ovarian(192;0.15)		all cancers(93;2.88e-05)|OV - Ovarian serous cystadenocarcinoma(262;0.000222)|GBM - Glioblastoma multiforme(486;0.00339)|Epithelial(262;0.00751)		GTTCAGGTGAGGCCTGACTGC	0.547													18	21	---	---	---	---	PASS
CCDC155	147872	broad.mit.edu	37	19	49913125	49913125	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49913125G>A	uc002pnm.1	+	15	1436	c.1262G>A	c.(1261-1263)GGG>GAG	p.G421E	CCDC155_uc010emx.1_Missense_Mutation_p.G392E	NM_144688	NP_653289	Q8N6L0	CC155_HUMAN	coiled-coil domain containing 155	421						integral to membrane	calcium ion binding			ovary(1)|central_nervous_system(1)	2						GCCCCAGCTGGGGGACAGGTG	0.582													18	20	---	---	---	---	PASS
CCDC155	147872	broad.mit.edu	37	19	49913126	49913126	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49913126G>A	uc002pnm.1	+	15	1437	c.1263G>A	c.(1261-1263)GGG>GGA	p.G421G	CCDC155_uc010emx.1_Silent_p.G392G	NM_144688	NP_653289	Q8N6L0	CC155_HUMAN	coiled-coil domain containing 155	421						integral to membrane	calcium ion binding			ovary(1)|central_nervous_system(1)	2						CCCCAGCTGGGGGACAGGTGA	0.582													18	20	---	---	---	---	PASS
ALDH16A1	126133	broad.mit.edu	37	19	49962211	49962211	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49962211C>T	uc002pnt.2	+						ALDH16A1_uc010yar.1_Intron|ALDH16A1_uc010yas.1_Intron|ALDH16A1_uc010yat.1_Intron	NM_153329	NP_699160	Q8IZ83	A16A1_HUMAN	aldehyde dehydrogenase 16 family, member A1								oxidoreductase activity|protein binding			skin(1)	1		all_lung(116;5.39e-06)|Lung NSC(112;1.97e-05)|all_neural(266;0.0966)|Ovarian(192;0.15)		OV - Ovarian serous cystadenocarcinoma(262;0.00156)|GBM - Glioblastoma multiforme(486;0.0251)		CCACTTTTCTCCCCAGGAGAG	0.592													54	60	---	---	---	---	PASS
CPT1C	126129	broad.mit.edu	37	19	50208544	50208544	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:50208544G>A	uc002ppj.2	+	9	1158	c.953G>A	c.(952-954)GGG>GAG	p.G318E	CPT1C_uc002ppl.3_Missense_Mutation_p.G284E|CPT1C_uc002ppi.2_Missense_Mutation_p.G235E|CPT1C_uc002ppk.2_Missense_Mutation_p.G307E|CPT1C_uc010eng.2_Missense_Mutation_p.G318E|CPT1C_uc010enh.2_Missense_Mutation_p.G318E|CPT1C_uc010ybc.1_Missense_Mutation_p.G189E|CPT1C_uc010eni.1_5'Flank	NM_152359	NP_689572	Q8TCG5	CPT1C_HUMAN	carnitine palmitoyltransferase 1C isoform 2	318	Cytoplasmic (Potential).				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)		CGGATTCCAGGGGTCCAAAAA	0.408													12	43	---	---	---	---	PASS
TSKS	60385	broad.mit.edu	37	19	50247621	50247621	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:50247621C>T	uc002ppm.2	-	8	1239	c.1228G>A	c.(1228-1230)GAA>AAA	p.E410K		NM_021733	NP_068379	Q9UJT2	TSKS_HUMAN	testis-specific kinase substrate	410							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)		CCCTCCAGTTCGCTCCTCAGT	0.582													14	23	---	---	---	---	PASS
SIGLEC11	114132	broad.mit.edu	37	19	50461834	50461834	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:50461834G>A	uc010ybh.1	-						SIGLEC11_uc010ybi.1_Intron	NM_052884	NP_443116	Q96RL6	SIG11_HUMAN	sialic acid binding Ig-like lectin 11 isoform 1						cell adhesion	integral to membrane	sugar binding			ovary(3)|central_nervous_system(2)|pancreas(1)	6		all_lung(116;0.00318)|all_neural(266;0.107)|Ovarian(192;0.17)		GBM - Glioblastoma multiforme(134;0.00107)|OV - Ovarian serous cystadenocarcinoma(262;0.00517)		GGGTCTGTGGGGAGGGAGGAC	0.692													12	9	---	---	---	---	PASS
NAPSA	9476	broad.mit.edu	37	19	50864256	50864256	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:50864256C>T	uc002prx.2	-	5	663	c.610G>A	c.(610-612)GAT>AAT	p.D204N	NR1H2_uc002prv.3_Intron	NM_004851	NP_004842	O96009	NAPSA_HUMAN	napsin A preproprotein	204					proteolysis	extracellular region	aspartic-type endopeptidase activity				0		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00743)|GBM - Glioblastoma multiforme(134;0.0183)		ACCAGTACATCCATCGGGGGC	0.527													16	30	---	---	---	---	PASS
SPIB	6689	broad.mit.edu	37	19	50926872	50926872	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:50926872C>T	uc002psd.2	+	5	375	c.350C>T	c.(349-351)CCC>CTC	p.P117L	SPIB_uc002pse.2_Missense_Mutation_p.P117L|SPIB_uc010ycc.1_Missense_Mutation_p.P26L	NM_003121	NP_003112	Q01892	SPIB_HUMAN	Spi-B transcription factor (Spi-1/PU.1 related)	117					regulation of transcription from RNA polymerase II promoter	cytoplasm|microtubule cytoskeleton|nucleus	sequence-specific DNA binding			lung(1)|kidney(1)	2		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00757)|GBM - Glioblastoma multiforme(134;0.0186)		ACCCTGGTTCCCCCGGCATAT	0.642													5	17	---	---	---	---	PASS
SYT3	84258	broad.mit.edu	37	19	51128808	51128808	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:51128808C>T	uc002pst.2	-	6	2050	c.1416G>A	c.(1414-1416)AAG>AAA	p.K472K	SYT3_uc002psv.2_Silent_p.K472K|SYT3_uc010ycd.1_Silent_p.K472K	NM_032298	NP_115674	Q9BQG1	SYT3_HUMAN	synaptotagmin III	472	C2 2.|Cytoplasmic (Potential).					cell junction|endosome|integral to membrane|synaptic vesicle membrane	metal ion binding|transporter activity			ovary(2)|breast(1)	3		all_neural(266;0.131)		OV - Ovarian serous cystadenocarcinoma(262;0.00462)|GBM - Glioblastoma multiforme(134;0.0188)		TCAGGGAGGCCTTCACGTAGG	0.408													4	10	---	---	---	---	PASS
KLK15	55554	broad.mit.edu	37	19	51330425	51330425	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:51330425G>A	uc002ptl.2	-						KLK15_uc002ptm.2_Intron|KLK15_uc002ptn.2_Intron|KLK15_uc002pto.2_Intron|KLK15_uc010ych.1_Intron|KLK15_uc010yci.1_Intron|KLK15_uc010eod.2_Intron	NM_017509	NP_059979	Q9H2R5	KLK15_HUMAN	kallikrein-related peptidase 15 isoform 4						proteolysis	extracellular region	serine-type endopeptidase activity			lung(1)|breast(1)	2		all_neural(266;0.057)		OV - Ovarian serous cystadenocarcinoma(262;0.00758)|GBM - Glioblastoma multiforme(134;0.0143)		AAGCTGTGCGGGCGAGTGGTT	0.617													9	13	---	---	---	---	PASS
KLK9	284366	broad.mit.edu	37	19	51509985	51509985	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:51509985G>A	uc002pux.1	-						KLK9_uc002puw.1_Intron|KLK9_uc010eol.1_Intron|KLK9_uc002puv.1_5'Flank	NM_012315	NP_036447	Q9UKQ9	KLK9_HUMAN	kallikrein-related peptidase 9 precursor						proteolysis	extracellular region	serine-type endopeptidase activity			central_nervous_system(1)	1		all_neural(266;0.0652)		OV - Ovarian serous cystadenocarcinoma(262;0.00328)|GBM - Glioblastoma multiforme(134;0.00885)		GATACCTGCTGGGACAGGCCT	0.602													3	9	---	---	---	---	PASS
SIGLEC9	27180	broad.mit.edu	37	19	51630380	51630380	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:51630380C>T	uc002pvu.2	+	4	909	c.842C>T	c.(841-843)CCC>CTC	p.P281L	SIGLEC9_uc010yct.1_Missense_Mutation_p.P281L	NM_014441	NP_055256	Q9Y336	SIGL9_HUMAN	sialic acid binding Ig-like lectin 9 precursor	281	Extracellular (Potential).|Ig-like C2-type 2.				cell adhesion|cell surface receptor linked signaling pathway	integral to plasma membrane	sugar binding			skin(1)	1		all_neural(266;0.0529)		GBM - Glioblastoma multiforme(134;0.000826)|OV - Ovarian serous cystadenocarcinoma(262;0.00295)		GACAGCAATCCCCCTGCCAGG	0.602													9	64	---	---	---	---	PASS
SIGLEC7	27036	broad.mit.edu	37	19	51645695	51645695	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:51645695G>A	uc002pvv.1	+	1	138	c.69G>A	c.(67-69)CGG>CGA	p.R23R	SIGLEC7_uc002pvw.1_Silent_p.R23R|SIGLEC7_uc010eoq.1_RNA|SIGLEC7_uc010eor.1_Silent_p.R23R	NM_014385	NP_055200	Q9Y286	SIGL7_HUMAN	sialic acid binding Ig-like lectin 7 isoform 1	23	Extracellular (Potential).				cell adhesion	integral to plasma membrane	receptor activity|sugar binding			large_intestine(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000836)|OV - Ovarian serous cystadenocarcinoma(262;0.00297)		AGAGTAACCGGAAGGATTACT	0.522													10	13	---	---	---	---	PASS
C19orf75	284369	broad.mit.edu	37	19	51769019	51769019	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:51769019C>T	uc002pwb.1	+						C19orf75_uc010eov.1_Intron|C19orf75_uc010ycw.1_Intron	NM_173635	NP_775906	Q8N7X8	CS075_HUMAN	hypothetical protein LOC284369							integral to membrane				ovary(1)|pancreas(1)	2						CTCACATGCTCTCTGCTTCCA	0.542													57	82	---	---	---	---	PASS
NKG7	4818	broad.mit.edu	37	19	51875759	51875759	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:51875759C>T	uc002pwj.2	-	1	202	c.31G>A	c.(31-33)GGG>AGG	p.G11R	NKG7_uc002pwk.2_Missense_Mutation_p.G11R	NM_005601	NP_005592	Q16617	NKG7_HUMAN	natural killer cell group 7 sequence	11	Helical; (Potential).					integral to plasma membrane				central_nervous_system(1)	1		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000211)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		AGGGAGCCCCCCAGCAGGGCC	0.473													9	17	---	---	---	---	PASS
SIGLEC12	89858	broad.mit.edu	37	19	52003495	52003495	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:52003495C>T	uc002pwx.1	-	2	543	c.487G>A	c.(487-489)GAG>AAG	p.E163K	SIGLEC12_uc002pww.1_Missense_Mutation_p.E45K|SIGLEC12_uc010eoy.1_Intron	NM_053003	NP_443729	Q96PQ1	SIG12_HUMAN	sialic acid binding immunoglobulin-like	163	Ig-like V-type 2.|Extracellular (Potential).				cell adhesion	integral to membrane	sugar binding			ovary(3)|skin(2)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.00161)|OV - Ovarian serous cystadenocarcinoma(262;0.0102)		CACAGACCCTCCTGCACAGTC	0.587													21	38	---	---	---	---	PASS
SIGLEC12	89858	broad.mit.edu	37	19	52003496	52003496	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:52003496C>T	uc002pwx.1	-	2	542	c.486G>A	c.(484-486)CAG>CAA	p.Q162Q	SIGLEC12_uc002pww.1_Silent_p.Q44Q|SIGLEC12_uc010eoy.1_Intron	NM_053003	NP_443729	Q96PQ1	SIG12_HUMAN	sialic acid binding immunoglobulin-like	162	Ig-like V-type 2.|Extracellular (Potential).				cell adhesion	integral to membrane	sugar binding			ovary(3)|skin(2)	5		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.00161)|OV - Ovarian serous cystadenocarcinoma(262;0.0102)		ACAGACCCTCCTGCACAGTCA	0.587													21	39	---	---	---	---	PASS
HAS1	3036	broad.mit.edu	37	19	52219645	52219645	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:52219645G>A	uc002pxo.1	-						HAS1_uc010epc.1_Intron|HAS1_uc010epd.1_Intron|HAS1_uc002pxn.1_Intron|HAS1_uc002pxp.1_Intron	NM_001523	NP_001514	Q92839	HAS1_HUMAN	hyaluronan synthase 1						cell adhesion	integral to plasma membrane	hyaluronan synthase activity|protein binding			ovary(1)|pancreas(1)	2		all_neural(266;0.0189)|Medulloblastoma(540;0.146)		GBM - Glioblastoma multiforme(134;0.00102)|OV - Ovarian serous cystadenocarcinoma(262;0.0177)		TATAGGCCTGGGTGGAGGGGA	0.373													14	23	---	---	---	---	PASS
FPR1	2357	broad.mit.edu	37	19	52249567	52249567	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:52249567C>T	uc002pxq.2	-	2	776	c.681G>A	c.(679-681)AAG>AAA	p.K227K		NM_002029	NP_002020	P21462	FPR1_HUMAN	formyl peptide receptor 1	227	Cytoplasmic (Potential).				activation of MAPK activity|cellular component movement|chemotaxis|G-protein signaling, coupled to cAMP nucleotide second messenger|nitric oxide mediated signal transduction	endosome|integral to membrane|plasma membrane	N-formyl peptide receptor activity			ovary(1)|lung(1)|skin(1)	3		all_neural(266;0.0189)|Medulloblastoma(540;0.146)		GBM - Glioblastoma multiforme(134;0.00106)|OV - Ovarian serous cystadenocarcinoma(262;0.018)	Nedocromil(DB00716)	GCTTGTGGATCTTGGTGGCAA	0.532													23	26	---	---	---	---	PASS
ZNF615	284370	broad.mit.edu	37	19	52496630	52496630	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:52496630G>A	uc002pye.1	-	6	1991	c.1699C>T	c.(1699-1701)CCC>TCC	p.P567S	ZNF615_uc002pyf.1_Missense_Mutation_p.P578S|ZNF615_uc002pyg.1_Missense_Mutation_p.P459S|ZNF615_uc002pyh.1_Missense_Mutation_p.P578S|ZNF615_uc010epi.1_Missense_Mutation_p.P574S|ZNF615_uc010ydg.1_Missense_Mutation_p.P572S	NM_198480	NP_940882	Q8N8J6	ZN615_HUMAN	zinc finger protein 615	567					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)		CATACATAGGGTTTCTCTCCT	0.428													30	29	---	---	---	---	PASS
ZNF614	80110	broad.mit.edu	37	19	52521720	52521720	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:52521720C>G	uc002pyj.2	-	3	445	c.43G>C	c.(43-45)GTG>CTG	p.V15L	ZNF614_uc002pyi.3_Missense_Mutation_p.V15L|ZNF614_uc010epj.2_5'UTR	NM_025040	NP_079316	Q8N883	ZN614_HUMAN	zinc finger protein 614	15	KRAB.				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)		CTGAATTCCACAGCCACATCC	0.418													12	20	---	---	---	---	PASS
PPP2R1A	5518	broad.mit.edu	37	19	52724338	52724338	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:52724338C>T	uc002pyp.2	+	12	1629	c.1470C>T	c.(1468-1470)TCC>TCT	p.S490S	PPP2R1A_uc010ydk.1_Silent_p.S435S|PPP2R1A_uc002pyq.2_Silent_p.S311S	NM_014225	NP_055040	P30153	2AAA_HUMAN	alpha isoform of regulatory subunit A, protein	490	PP2A subunit C binding.|HEAT 13.				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)		TGGCCATGTCCGGAGACCCCA	0.592			Mis		clear cell ovarian carcinoma								17	57	---	---	---	---	PASS
ZNF610	162963	broad.mit.edu	37	19	52857607	52857607	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:52857607G>A	uc002pyx.3	+	5	700	c.294G>A	c.(292-294)AGG>AGA	p.R98R	ZNF610_uc002pyy.3_Silent_p.R98R|ZNF610_uc002pyz.3_Intron|ZNF610_uc002pza.2_Silent_p.R98R	NM_001161426	NP_001154898	Q8N9Z0	ZN610_HUMAN	zinc finger protein 610 isoform a	98					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)|upper_aerodigestive_tract(1)	3				OV - Ovarian serous cystadenocarcinoma(262;0.00396)|GBM - Glioblastoma multiforme(134;0.00434)		CAGATGGAAGGGAATGTGTCA	0.338													19	9	---	---	---	---	PASS
ZNF528	84436	broad.mit.edu	37	19	52919338	52919338	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:52919338C>T	uc002pzh.2	+	7	1659	c.1233C>T	c.(1231-1233)TGC>TGT	p.C411C	ZNF528_uc002pzi.2_Silent_p.C178C	NM_032423	NP_115799	Q3MIS6	ZN528_HUMAN	zinc finger protein 528	411	C2H2-type 8.				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)		CTTATGGATGCAGTCAGTGTG	0.403													12	31	---	---	---	---	PASS
ZNF578	147660	broad.mit.edu	37	19	53014301	53014301	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:53014301G>A	uc002pzp.3	+	6	911	c.667G>A	c.(667-669)GAA>AAA	p.E223K		NM_001099694	NP_001093164	Q96N58	ZN578_HUMAN	zinc finger protein 578	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00819)|OV - Ovarian serous cystadenocarcinoma(262;0.01)		ACAAAAACAGGAAGTACACAT	0.338													13	60	---	---	---	---	PASS
ZNF578	147660	broad.mit.edu	37	19	53014382	53014382	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:53014382C>T	uc002pzp.3	+	6	992	c.748C>T	c.(748-750)CAG>TAG	p.Q250*		NM_001099694	NP_001093164	Q96N58	ZN578_HUMAN	zinc finger protein 578	25	C2H2-type 1; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00819)|OV - Ovarian serous cystadenocarcinoma(262;0.01)		AAGGAAACATCAGATAATCCA	0.353													9	76	---	---	---	---	PASS
ZNF578	147660	broad.mit.edu	37	19	53014608	53014608	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:53014608G>A	uc002pzp.3	+	6	1218	c.974G>A	c.(973-975)AGT>AAT	p.S325N		NM_001099694	NP_001093164	Q96N58	ZN578_HUMAN	zinc finger protein 578	100	C2H2-type 4.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00819)|OV - Ovarian serous cystadenocarcinoma(262;0.01)		AAGTCCTTCAGTTACAAGTCA	0.423													38	54	---	---	---	---	PASS
ZNF578	147660	broad.mit.edu	37	19	53015300	53015300	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:53015300A>C	uc002pzp.3	+	6	1910	c.1666A>C	c.(1666-1668)AAC>CAC	p.N556H		NM_001099694	NP_001093164	Q96N58	ZN578_HUMAN	zinc finger protein 578	331	C2H2-type 12.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				GBM - Glioblastoma multiforme(134;0.00819)|OV - Ovarian serous cystadenocarcinoma(262;0.01)		TTATCTGGCAAACCATACTAG	0.403													24	35	---	---	---	---	PASS
ZNF600	162966	broad.mit.edu	37	19	53269658	53269658	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:53269658A>G	uc002qab.3	-	3	1637	c.1351T>C	c.(1351-1353)TTC>CTC	p.F451L		NM_198457	NP_940859	Q6ZNG1	ZN600_HUMAN	zinc finger protein 600	451	C2H2-type 11; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding				0				OV - Ovarian serous cystadenocarcinoma(262;0.0241)|GBM - Glioblastoma multiforme(134;0.0404)		CCACAACTGAAAACCTTTTCA	0.373													20	64	---	---	---	---	PASS
ZNF677	342926	broad.mit.edu	37	19	53741139	53741139	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:53741139G>A	uc002qbf.1	-	5	1026	c.841C>T	c.(841-843)CAT>TAT	p.H281Y	ZNF677_uc002qbg.1_Missense_Mutation_p.H281Y	NM_182609	NP_872415	Q86XU0	ZN677_HUMAN	zinc finger protein 677	281	C2H2-type 1.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.00352)		ATTCTCTGATGATTAGTGAGG	0.398													9	33	---	---	---	---	PASS
VN1R2	317701	broad.mit.edu	37	19	53762721	53762721	+	Missense_Mutation	SNP	T	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:53762721T>G	uc002qbi.2	+	1	1177	c.1093T>G	c.(1093-1095)TTT>GTT	p.F365V		NM_173856	NP_776255	Q8NFZ6	VN1R2_HUMAN	vomeronasal 1 receptor 2	365	Helical; Name=7; (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity				0				GBM - Glioblastoma multiforme(134;0.00301)		TATTAGCCCTTTTGTTCTCAT	0.433													46	45	---	---	---	---	PASS
VN1R4	317703	broad.mit.edu	37	19	53770583	53770583	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:53770583C>T	uc010ydu.1	-	1	336	c.336G>A	c.(334-336)AGG>AGA	p.R112R		NM_173857	NP_776256	Q7Z5H5	VN1R4_HUMAN	vomeronasal 1 receptor 4	112	Cytoplasmic (Potential).				response to pheromone	actin cytoskeleton|cytoplasm|integral to membrane|plasma membrane	pheromone receptor activity			ovary(2)	2				GBM - Glioblastoma multiforme(134;0.00294)		ACCTGGATTTCCTGGAGCTGA	0.498										HNSCC(26;0.072)			5	9	---	---	---	---	PASS
ZNF761	388561	broad.mit.edu	37	19	53959500	53959500	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:53959500G>T	uc010eqp.2	+	7	2197	c.1739G>T	c.(1738-1740)TGT>TTT	p.C580F	ZNF761_uc010ydy.1_Missense_Mutation_p.C526F|ZNF761_uc002qbt.1_Missense_Mutation_p.C526F	NM_001008401	NP_001008401	Q86XN6	ZN761_HUMAN	zinc finger protein 761	580	C2H2-type 14; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1				GBM - Glioblastoma multiforme(134;0.00786)		CCTTACAAATGTGAAGATAGT	0.388													33	48	---	---	---	---	PASS
MIR524	574478	broad.mit.edu	37	19	54214278	54214278	+	RNA	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54214278G>A	hsa-mir-524|MI0003160	+			c.23G>A			MIR517A_hsa-mir-517a|MI0003161_5'Flank|MIR519D_hsa-mir-519d|MI0003162_5'Flank																	0						ACCCTACAAAGGGAAGCACTT	0.433													23	112	---	---	---	---	PASS
MIR521-2	574481	broad.mit.edu	37	19	54219882	54219882	+	RNA	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54219882C>T	hsa-mir-521-2|MI0003163	+			c.35C>T																				0						GAAGAATTTTCTCTTGTCTAA	0.423													53	96	---	---	---	---	PASS
MIR517B	574483	broad.mit.edu	37	19	54224374	54224374	+	RNA	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54224374C>T	hsa-mir-517b|MI0003165	+			c.45C>T			MIR520G_hsa-mir-520g|MI0003166_5'Flank																	0						AAGAAAAGATCGTGCATCCCT	0.398													17	81	---	---	---	---	PASS
MIR516B1	574490	broad.mit.edu	37	19	54240181	54240181	+	RNA	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54240181C>T	hsa-mir-516b-1|MI0003172	+			c.83C>T			MIR518A2_hsa-mir-518a-2|MI0003173_5'Flank																	0						GAGGGTTACTCTTTGAGAAAA	0.408													15	47	---	---	---	---	PASS
NLRP12	91662	broad.mit.edu	37	19	54304506	54304506	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54304506G>A	uc002qch.3	-	7	2951	c.2731C>T	c.(2731-2733)CCC>TCC	p.P911S	NLRP12_uc010eqw.2_Missense_Mutation_p.P194S|NLRP12_uc002qci.3_Missense_Mutation_p.P911S|NLRP12_uc002qcj.3_Missense_Mutation_p.P912S|NLRP12_uc002qck.3_Intron|NLRP12_uc010eqx.2_Intron	NM_144687	NP_653288	P59046	NAL12_HUMAN	NLR family, pyrin domain containing 12 isoform	911					negative regulation of I-kappaB kinase/NF-kappaB cascade|negative regulation of interleukin-1 secretion|negative regulation of interleukin-6 biosynthetic process|negative regulation of protein autophosphorylation|negative regulation of Toll signaling pathway|positive regulation of inflammatory response|positive regulation of interleukin-1 beta secretion|regulation of interleukin-18 biosynthetic process|release of cytoplasmic sequestered NF-kappaB	cytoplasm	ATP binding|caspase activator activity|protein binding			ovary(4)|upper_aerodigestive_tract(2)|lung(1)	7	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(134;0.026)		TTGCACGTGGGATGCCTGAGG	0.622													4	15	---	---	---	---	PASS
CACNG7	59284	broad.mit.edu	37	19	54418614	54418614	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54418614C>T	uc002qcr.1	+						CACNG7_uc010era.1_Intron	NM_031896	NP_114102	P62955	CCG7_HUMAN	voltage-dependent calcium channel gamma-7						regulation of alpha-amino-3-hydroxy-5-methyl-4-isoxazole propionate selective glutamate receptor activity	alpha-amino-3-hydroxy-5-methyl-4-isoxazolepropionic acid selective glutamate receptor complex|voltage-gated calcium channel complex	voltage-gated calcium channel activity			ovary(1)	1	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;0.0711)		CCATCCCCTCCCCAGAGACAG	0.612													6	14	---	---	---	---	PASS
TMC4	147798	broad.mit.edu	37	19	54675741	54675741	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54675741C>T	uc010erf.2	-	2	341	c.209G>A	c.(208-210)GGA>GAA	p.G70E	TMC4_uc002qdo.2_Missense_Mutation_p.G64E	NM_001145303	NP_001138775	Q7Z404	TMC4_HUMAN	transmembrane channel-like 4 isoform 1	70	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)					TCTGCTCCTTCCTCCATCCTC	0.647													8	39	---	---	---	---	PASS
LILRA6	79168	broad.mit.edu	37	19	54744735	54744735	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54744735G>A	uc002qeu.1	-	5	1051	c.927C>T	c.(925-927)CCC>CCT	p.P309P	LILRB3_uc002qeh.1_Intron|LILRB3_uc002qeg.1_Intron|LILRB3_uc002qei.1_Intron|LILRA6_uc002qek.1_Silent_p.P309P|LILRB3_uc010erh.1_Intron|LILRB3_uc002qej.1_Intron|LILRA6_uc002qel.1_Silent_p.P309P|LILRA6_uc002qem.1_RNA|LILRB3_uc002qen.1_RNA|LILRB3_uc002qeo.1_Silent_p.P309P|LILRB3_uc002qep.1_Intron|LILRB3_uc002qeq.1_Silent_p.P309P|LILRB3_uc002qer.1_RNA|LILRB3_uc002qes.1_Intron|LILRA6_uc010yep.1_Silent_p.P309P|LILRA6_uc010yeq.1_Silent_p.P309P|LILRA6_uc002qet.3_RNA|LILRA6_uc002qev.1_Silent_p.P170P	NM_024318	NP_077294	Q6PI73	LIRA6_HUMAN	leukocyte immunoglobulin-like receptor,	309	Extracellular (Potential).|Ig-like C2-type 1.					integral to membrane	receptor activity			skin(2)	2	all_cancers(19;0.00723)|all_epithelial(19;0.00389)|all_lung(19;0.0175)|Lung NSC(19;0.0325)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		GGGGGTCGCTGGGGGCCGACC	0.677													15	66	---	---	---	---	PASS
LILRB5	10990	broad.mit.edu	37	19	54756271	54756271	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54756271G>A	uc002qex.2	-						LILRA6_uc002qew.1_Intron|LILRB5_uc010yer.1_Intron|LILRB5_uc002qey.2_Intron|LILRB5_uc002qez.2_Intron|LILRB5_uc002qfa.1_3'UTR	NM_006840	NP_006831	O75023	LIRB5_HUMAN	leukocyte immunoglobulin-like receptor,						cell surface receptor linked signaling pathway|defense response	integral to membrane	transmembrane receptor activity			ovary(1)|pancreas(1)	2	all_cancers(19;0.00681)|all_epithelial(19;0.00368)|all_lung(19;0.016)|Lung NSC(19;0.0296)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		CTGGCCCTGGGGGAGGACACG	0.592													18	39	---	---	---	---	PASS
LILRB5	10990	broad.mit.edu	37	19	54760033	54760033	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54760033G>A	uc002qex.2	-	4	639	c.528C>T	c.(526-528)TCC>TCT	p.S176S	LILRA6_uc002qew.1_Intron|LILRB5_uc010yer.1_Silent_p.S167S|LILRB5_uc002qey.2_Silent_p.S176S|LILRB5_uc002qez.2_Intron|LILRB5_uc002qfa.1_Intron|LILRB5_uc010yes.1_Intron	NM_006840	NP_006831	O75023	LIRB5_HUMAN	leukocyte immunoglobulin-like receptor,	176	Extracellular (Potential).|Ig-like C2-type 2.				cell surface receptor linked signaling pathway|defense response	integral to membrane	transmembrane receptor activity			ovary(1)|pancreas(1)	2	all_cancers(19;0.00681)|all_epithelial(19;0.00368)|all_lung(19;0.016)|Lung NSC(19;0.0296)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		ACAGGGCCTGGGATGGCCCTT	0.547													11	36	---	---	---	---	PASS
LILRB5	10990	broad.mit.edu	37	19	54760446	54760446	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54760446G>A	uc002qex.2	-	3	372	c.261C>T	c.(259-261)TCC>TCT	p.S87S	LILRA6_uc002qew.1_Intron|LILRB5_uc010yer.1_Silent_p.S87S|LILRB5_uc002qey.2_Silent_p.S87S|LILRB5_uc002qez.2_Silent_p.S87S|LILRB5_uc002qfa.1_Silent_p.S77S|LILRB5_uc010yes.1_RNA	NM_006840	NP_006831	O75023	LIRB5_HUMAN	leukocyte immunoglobulin-like receptor,	87	Ig-like C2-type 1.|Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response	integral to membrane	transmembrane receptor activity			ovary(1)|pancreas(1)	2	all_cancers(19;0.00681)|all_epithelial(19;0.00368)|all_lung(19;0.016)|Lung NSC(19;0.0296)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		CATACACCGTGGATGGAATGT	0.602													18	125	---	---	---	---	PASS
LILRB5	10990	broad.mit.edu	37	19	54760447	54760447	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54760447G>A	uc002qex.2	-	3	371	c.260C>T	c.(259-261)TCC>TTC	p.S87F	LILRA6_uc002qew.1_Intron|LILRB5_uc010yer.1_Missense_Mutation_p.S87F|LILRB5_uc002qey.2_Missense_Mutation_p.S87F|LILRB5_uc002qez.2_Missense_Mutation_p.S87F|LILRB5_uc002qfa.1_Missense_Mutation_p.S77F|LILRB5_uc010yes.1_RNA	NM_006840	NP_006831	O75023	LIRB5_HUMAN	leukocyte immunoglobulin-like receptor,	87	Ig-like C2-type 1.|Extracellular (Potential).				cell surface receptor linked signaling pathway|defense response	integral to membrane	transmembrane receptor activity			ovary(1)|pancreas(1)	2	all_cancers(19;0.00681)|all_epithelial(19;0.00368)|all_lung(19;0.016)|Lung NSC(19;0.0296)|Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		ATACACCGTGGATGGAATGTG	0.607													19	126	---	---	---	---	PASS
LILRB2	10288	broad.mit.edu	37	19	54783937	54783937	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54783937G>A	uc002qfb.2	-						LILRA6_uc002qew.1_Intron|LILRB2_uc010eri.2_Intron|LILRB2_uc010erj.2_Intron|LILRB2_uc002qfc.2_Intron|LILRB2_uc010yet.1_Intron|LILRB2_uc010yeu.1_Intron	NM_005874	NP_005865	Q8N423	LIRB2_HUMAN	leukocyte immunoglobulin-like receptor,						cell surface receptor linked signaling pathway|cell-cell signaling|cellular defense response|immune response|regulation of immune response	integral to plasma membrane|membrane fraction	receptor activity			skin(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		GTCCCTGGAAGGAAATCAAAG	0.567													7	62	---	---	---	---	PASS
LILRB2	10288	broad.mit.edu	37	19	54783938	54783938	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54783938G>A	uc002qfb.2	-						LILRA6_uc002qew.1_Intron|LILRB2_uc010eri.2_Intron|LILRB2_uc010erj.2_Intron|LILRB2_uc002qfc.2_Intron|LILRB2_uc010yet.1_Intron|LILRB2_uc010yeu.1_Intron	NM_005874	NP_005865	Q8N423	LIRB2_HUMAN	leukocyte immunoglobulin-like receptor,						cell surface receptor linked signaling pathway|cell-cell signaling|cellular defense response|immune response|regulation of immune response	integral to plasma membrane|membrane fraction	receptor activity			skin(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		TCCCTGGAAGGAAATCAAAGG	0.562													7	62	---	---	---	---	PASS
LILRA3	11026	broad.mit.edu	37	19	54802093	54802093	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54802093G>A	uc002qfd.2	-	6	1160	c.1095C>T	c.(1093-1095)TCC>TCT	p.S365S	LILRA6_uc002qew.1_Intron|LILRA3_uc010erk.2_Silent_p.S301S	NM_006865	NP_006856	Q8N6C8	LIRA3_HUMAN	leukocyte immunoglobulin-like receptor,	365	Ig-like C2-type 4.				defense response	extracellular region|plasma membrane	antigen binding|receptor activity			ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		GACGCAGCGGGGAATCAGCTG	0.587													22	61	---	---	---	---	PASS
LILRA3	11026	broad.mit.edu	37	19	54802698	54802698	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54802698G>A	uc002qfd.2	-	5	808	c.743C>T	c.(742-744)TCT>TTT	p.S248F	LILRA6_uc002qew.1_Intron|LILRA3_uc010erk.2_Missense_Mutation_p.S184F	NM_006865	NP_006856	Q8N6C8	LIRA3_HUMAN	leukocyte immunoglobulin-like receptor,	248	Ig-like C2-type 3.				defense response	extracellular region|plasma membrane	antigen binding|receptor activity			ovary(1)	1	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.105)		GCCGGCATCAGAGCCACACTG	0.612													7	26	---	---	---	---	PASS
LAIR1	3903	broad.mit.edu	37	19	54868233	54868233	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54868233G>A	uc002qfk.1	-						LAIR1_uc002qfl.1_Intron|LAIR1_uc002qfm.1_Intron|LAIR1_uc002qfn.1_Intron|LAIR1_uc010yex.1_Intron|LAIR1_uc002qfo.2_Intron	NM_002287	NP_002278	Q6GTX8	LAIR1_HUMAN	leukocyte-associated immunoglobulin-like							integral to membrane|plasma membrane	protein binding|receptor activity			ovary(4)	4	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.0573)		GTGCATCTAAGAAAGACAGAA	0.323													23	40	---	---	---	---	PASS
LENG9	94059	broad.mit.edu	37	19	54973752	54973752	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:54973752C>T	uc010yez.1	-	1	1143	c.1024G>A	c.(1024-1026)GAA>AAA	p.E342K		NM_198988	NP_945339	Q96B70	LENG9_HUMAN	leukocyte receptor cluster (LRC) member 9	342					RNA metabolic process	intracellular	catalytic activity|nucleic acid binding|zinc ion binding				0	Ovarian(34;0.19)			GBM - Glioblastoma multiforme(193;0.134)		ACCAGGTATTCCTGGGCCTTG	0.632													8	28	---	---	---	---	PASS
KIR3DX1	90011	broad.mit.edu	37	19	55046997	55046997	+	5'Flank	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:55046997C>T	uc010erm.2	+						KIR3DX1_uc010yfa.1_RNA|KIR3DX1_uc010yfb.1_Intron|KIR3DX1_uc010yfc.1_Intron|KIR3DX1_uc010yfd.1_Intron					Homo sapiens killer cell immunoglobulin-like receptor, three domains, X1, mRNA (cDNA clone IMAGE:4849085).											ovary(1)	1				GBM - Glioblastoma multiforme(193;0.099)		GCTGTCTTTTCCATGGGTCCT	0.537													13	19	---	---	---	---	PASS
LILRA2	11027	broad.mit.edu	37	19	55098690	55098690	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:55098690G>A	uc002qgg.3	+	8	1418	c.1329G>A	c.(1327-1329)CAG>CAA	p.Q443Q	LILRA2_uc010ern.2_3'UTR|LILRA2_uc002qgf.2_Silent_p.Q426Q|LILRA2_uc010ero.2_Silent_p.Q414Q|LILRA2_uc010yfg.1_Intron	NM_001130917	NP_001124389	Q8N149	LIRA2_HUMAN	leukocyte immunoglobulin-like receptor,	443	Extracellular (Potential).				defense response	integral to membrane	antigen binding|receptor activity			ovary(1)	1				GBM - Glioblastoma multiforme(193;0.0963)		AACACCCCCAGGATTACACAG	0.592													9	73	---	---	---	---	PASS
LILRB1	10859	broad.mit.edu	37	19	55143641	55143641	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:55143641C>T	uc002qgj.2	+	6	954	c.614C>T	c.(613-615)CCC>CTC	p.P205L	LILRB1_uc010erp.1_Intron|LILRB1_uc002qgl.2_Missense_Mutation_p.P205L|LILRB1_uc002qgk.2_Missense_Mutation_p.P205L|LILRB1_uc002qgm.2_Missense_Mutation_p.P205L|LILRB1_uc010erq.2_Missense_Mutation_p.P205L|LILRB1_uc010err.2_RNA	NM_006669	NP_006660	Q8NHL6	LIRB1_HUMAN	leukocyte immunoglobulin-like receptor,	205	Ig-like C2-type 2.|Extracellular (Potential).				regulation of immune response|response to virus	integral to membrane|plasma membrane	protein phosphatase 1 binding|receptor activity			large_intestine(1)|ovary(1)|skin(1)	3				GBM - Glioblastoma multiforme(193;0.0188)		TCGAACTCTCCCTATGAGTGG	0.607										HNSCC(37;0.09)			23	43	---	---	---	---	PASS
KIR3DL3	115653	broad.mit.edu	37	19	55247337	55247337	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:55247337G>A	uc002qgu.1	+	7	1123	c.1105G>A	c.(1105-1107)GAG>AAG	p.E369K	KIR2DL3_uc002qgv.2_Intron|KIR2DL3_uc002qgx.2_5'Flank|KIR2DL3_uc002qgy.2_5'Flank|KIR2DL3_uc010erw.1_5'Flank	NM_153443	NP_703144	Q8N743	KI3L3_HUMAN	killer cell immunoglobulin-like receptor, three	369	Cytoplasmic (Potential).					integral to membrane|plasma membrane	receptor activity			ovary(2)	2				GBM - Glioblastoma multiforme(193;0.0192)		AGTGAACAGGGAGGTAGGTGC	0.552													34	55	---	---	---	---	PASS
KIR2DL3	3804	broad.mit.edu	37	19	55255278	55255278	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:55255278G>A	uc002qgv.2	+	4	424	c.406G>A	c.(406-408)GGC>AGC	p.G136S	KIR2DL3_uc002qgx.2_Missense_Mutation_p.G136S|KIR2DL3_uc002qgy.2_Intron|KIR2DL3_uc010erw.1_Missense_Mutation_p.G136S|KIR2DL1_uc002qgz.1_Missense_Mutation_p.G46S|KIR2DL3_uc002qha.1_Intron	NM_015868	NP_056952	P43628	KI2L3_HUMAN	killer cell immunoglobulin-like receptor, two	136	Extracellular (Potential).				immune response|regulation of immune response	integral to plasma membrane	antigen binding|protein binding|receptor activity			ovary(2)	2				GBM - Glioblastoma multiforme(193;0.0192)		AGCCCAGCCGGGCCCCACGGT	0.572													25	29	---	---	---	---	PASS
KIR3DL1	3811	broad.mit.edu	37	19	55329785	55329785	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:55329785C>T	uc002qhk.3	+	3	149	c.86C>T	c.(85-87)CCC>CTC	p.P29L	KIR2DS4_uc010yfj.1_Intron|KIR2DS4_uc010yfk.1_Intron|KIR3DL1_uc010yfn.1_5'UTR|KIR3DL1_uc010esf.2_Intron|KIR3DL1_uc010yfo.1_5'UTR|KIR3DL1_uc002qhl.3_Missense_Mutation_p.P29L	NM_013289	NP_037421	P43629	KI3L1_HUMAN	killer cell immunoglobulin-like receptor, three	29	Extracellular (Potential).				immune response|regulation of immune response	integral to plasma membrane	HLA-B specific inhibitory MHC class I receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|skin(1)	5				GBM - Glioblastoma multiforme(193;0.0192)		CAGGACAAACCCTTCCTGTCT	0.557													33	20	---	---	---	---	PASS
KIR3DL1	3811	broad.mit.edu	37	19	55329913	55329913	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:55329913C>T	uc002qhk.3	+	3	277	c.214C>T	c.(214-216)CAT>TAT	p.H72Y	KIR2DS4_uc010yfj.1_Intron|KIR2DS4_uc010yfk.1_Intron|KIR3DL1_uc010yfn.1_Missense_Mutation_p.H14Y|KIR3DL1_uc010esf.2_Intron|KIR3DL1_uc010yfo.1_Missense_Mutation_p.H14Y|KIR3DL1_uc002qhl.3_Missense_Mutation_p.H72Y	NM_013289	NP_037421	P43629	KI3L1_HUMAN	killer cell immunoglobulin-like receptor, three	72	Extracellular (Potential).|Ig-like C2-type 1.				immune response|regulation of immune response	integral to plasma membrane	HLA-B specific inhibitory MHC class I receptor activity			ovary(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(1)|skin(1)	5				GBM - Glioblastoma multiforme(193;0.0192)		TCCCATCTTCCATGGCAGAAT	0.502													11	46	---	---	---	---	PASS
KIR2DS4	3809	broad.mit.edu	37	19	55349152	55349152	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:55349152G>A	uc002qhm.1	+	3	238	c.192G>A	c.(190-192)GGG>GGA	p.G64G	KIR2DS4_uc010yfj.1_Silent_p.G57G|KIR2DS4_uc010yfk.1_RNA|KIR3DL1_uc002qhl.3_Intron|KIR2DS4_uc010esg.1_Silent_p.G64G|KIR2DS4_uc002qhn.1_Silent_p.G11G	NM_012314	NP_036446	P43632	KI2S4_HUMAN	killer cell immunoglobulin-like receptor, two	64	Extracellular (Potential).|Ig-like C2-type 1.					integral to plasma membrane	receptor activity				0				GBM - Glioblastoma multiforme(193;0.0192)		ACAGAGAGGGGAAGTTTAACA	0.512													35	174	---	---	---	---	PASS
FCAR	2204	broad.mit.edu	37	19	55396865	55396865	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:55396865C>G	uc002qhr.1	+	3	486	c.289C>G	c.(289-291)CGC>GGC	p.R97G	FCAR_uc002qhq.2_Missense_Mutation_p.R97G|FCAR_uc002qhs.1_RNA|FCAR_uc002qht.1_Missense_Mutation_p.R70G|FCAR_uc010esi.1_Missense_Mutation_p.R70G|FCAR_uc002qhu.1_Missense_Mutation_p.R97G|FCAR_uc002qhv.1_Missense_Mutation_p.R97G|FCAR_uc002qhw.1_Missense_Mutation_p.R85G|FCAR_uc002qhx.1_Missense_Mutation_p.R85G|FCAR_uc002qhy.1_Missense_Mutation_p.R85G|FCAR_uc002qhz.1_Missense_Mutation_p.R85G|FCAR_uc002qia.1_Intron	NM_002000	NP_001991	P24071	FCAR_HUMAN	Fc alpha receptor isoform a precursor	97	Extracellular (Potential).|Ig-like C2-type 1.				immune response	extracellular region|integral to plasma membrane	IgA binding|receptor activity			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(193;0.0443)		CAAGGCAGGGCGCTATCAGTG	0.502													15	38	---	---	---	---	PASS
NCR1	9437	broad.mit.edu	37	19	55417961	55417961	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:55417961G>A	uc002qib.2	+	3	189	c.151G>A	c.(151-153)GGA>AGA	p.G51R	NCR1_uc002qic.2_Missense_Mutation_p.G51R|NCR1_uc002qie.2_Missense_Mutation_p.G51R|NCR1_uc002qid.2_Intron|NCR1_uc002qif.2_Intron|NCR1_uc010esj.2_Intron	NM_004829	NP_004820	O76036	NCTR1_HUMAN	natural cytotoxicity triggering receptor 1	51	Ig-like 1.|Extracellular (Potential).				cellular defense response|natural killer cell activation|regulation of natural killer cell mediated cytotoxicity	integral to plasma membrane|SWI/SNF complex	receptor activity|receptor signaling protein activity			large_intestine(1)|ovary(1)	2				GBM - Glioblastoma multiforme(193;0.0449)		CTGTTGCCAGGGAAATTATGG	0.488													7	60	---	---	---	---	PASS
NLRP7	199713	broad.mit.edu	37	19	55451163	55451163	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:55451163G>A	uc002qih.3	-	4	1100	c.1024C>T	c.(1024-1026)CAA>TAA	p.Q342*	NLRP7_uc002qig.3_Nonsense_Mutation_p.Q342*|NLRP7_uc002qii.3_Nonsense_Mutation_p.Q342*|NLRP7_uc010esk.2_Nonsense_Mutation_p.Q342*|NLRP7_uc010esl.2_Nonsense_Mutation_p.Q370*	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	342	NACHT.						ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		CGCATGGCTTGGTCCTCGTCT	0.617													6	14	---	---	---	---	PASS
NLRP7	199713	broad.mit.edu	37	19	55451164	55451164	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:55451164G>A	uc002qih.3	-	4	1099	c.1023C>T	c.(1021-1023)GAC>GAT	p.D341D	NLRP7_uc002qig.3_Silent_p.D341D|NLRP7_uc002qii.3_Silent_p.D341D|NLRP7_uc010esk.2_Silent_p.D341D|NLRP7_uc010esl.2_Silent_p.D369D	NM_206828	NP_996611	Q8WX94	NALP7_HUMAN	NACHT, leucine rich repeat and PYD containing 7	341	NACHT.						ATP binding			large_intestine(1)|breast(1)|central_nervous_system(1)	3				GBM - Glioblastoma multiforme(193;0.0325)		GCATGGCTTGGTCCTCGTCTC	0.617													7	13	---	---	---	---	PASS
NLRP2	55655	broad.mit.edu	37	19	55493720	55493720	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:55493720G>A	uc002qij.2	+	6	740	c.654G>A	c.(652-654)GGG>GGA	p.G218G	NLRP2_uc010yfp.1_Silent_p.G195G|NLRP2_uc010esn.2_Silent_p.G194G|NLRP2_uc010eso.2_Silent_p.G215G|NLRP2_uc010esp.2_Silent_p.G196G	NM_017852	NP_060322	Q9NX02	NALP2_HUMAN	NLR family, pyrin domain containing 2	218	NACHT.|ATP (Potential).				apoptosis|positive regulation of caspase activity|positive regulation of interleukin-1 beta secretion	cytoplasm	ATP binding|Pyrin domain binding			ovary(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(297;0.163)	GBM - Glioblastoma multiforme(193;0.028)		CAGGCCTTGGGAAAACCACGC	0.547													21	31	---	---	---	---	PASS
SYT5	6861	broad.mit.edu	37	19	55686339	55686339	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:55686339G>A	uc002qjm.1	-	6	1797	c.737C>T	c.(736-738)TCC>TTC	p.S246F	SYT5_uc002qjp.2_Missense_Mutation_p.S242F|SYT5_uc002qjn.1_Missense_Mutation_p.S246F|SYT5_uc002qjo.1_Missense_Mutation_p.S245F	NM_003180	NP_003171	O00445	SYT5_HUMAN	synaptotagmin V	246	Cytoplasmic (Potential).				energy reserve metabolic process|regulation of insulin secretion|synaptic transmission	cell junction|integral to membrane|recycling endosome membrane|synaptic vesicle membrane	metal ion binding|transporter activity				0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.0452)		ATAGCGGAGGGAGAAGCAGAT	0.597													7	20	---	---	---	---	PASS
ISOC2	79763	broad.mit.edu	37	19	55966703	55966703	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:55966703G>A	uc002qlb.2	-						ISOC2_uc002qla.2_Missense_Mutation_p.P131S|ISOC2_uc002qlc.2_Intron	NM_001136201	NP_001129673	Q96AB3	ISOC2_HUMAN	isochorismatase domain containing 2 isoform 1						protein destabilization	mitochondrion|nucleus	catalytic activity|protein binding			ovary(1)	1	Breast(117;0.155)		BRCA - Breast invasive adenocarcinoma(297;0.18)|LUSC - Lung squamous cell carcinoma(43;0.193)	GBM - Glioblastoma multiforme(193;0.0535)		GTGTTCTGTGGGTAGAGAGAG	0.637													5	8	---	---	---	---	PASS
ISOC2	79763	broad.mit.edu	37	19	55966704	55966704	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:55966704G>A	uc002qlb.2	-						ISOC2_uc002qla.2_Silent_p.Y130Y|ISOC2_uc002qlc.2_Intron	NM_001136201	NP_001129673	Q96AB3	ISOC2_HUMAN	isochorismatase domain containing 2 isoform 1						protein destabilization	mitochondrion|nucleus	catalytic activity|protein binding			ovary(1)	1	Breast(117;0.155)		BRCA - Breast invasive adenocarcinoma(297;0.18)|LUSC - Lung squamous cell carcinoma(43;0.193)	GBM - Glioblastoma multiforme(193;0.0535)		TGTTCTGTGGGTAGAGAGAGG	0.632													5	8	---	---	---	---	PASS
NLRP9	338321	broad.mit.edu	37	19	56220399	56220399	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:56220399G>A	uc002qly.2	-	9	2883	c.2855C>T	c.(2854-2856)TCT>TTT	p.S952F		NM_176820	NP_789790	Q7RTR0	NALP9_HUMAN	NLR family, pyrin domain containing 9	952						cytoplasm	ATP binding			skin(4)|ovary(2)|breast(1)	7		Colorectal(82;0.000133)|Ovarian(87;0.133)		GBM - Glioblastoma multiforme(193;0.123)		ATCAAAGCCAGATTTGTGCAG	0.383													8	32	---	---	---	---	PASS
NLRP11	204801	broad.mit.edu	37	19	56297027	56297027	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:56297027C>T	uc010ygf.1	-	12	3777	c.3066G>A	c.(3064-3066)ATG>ATA	p.M1022I	NLRP11_uc002qlz.2_Missense_Mutation_p.M869I|NLRP11_uc002qmb.2_Missense_Mutation_p.M923I|NLRP11_uc002qmc.2_RNA	NM_145007	NP_659444	P59045	NAL11_HUMAN	NLR family, pyrin domain containing 11	1022							ATP binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		Colorectal(82;0.0002)		GBM - Glioblastoma multiforme(193;0.0325)		TTGACGTTCTCATGGCTGCAG	0.378													14	18	---	---	---	---	PASS
NLRP11	204801	broad.mit.edu	37	19	56329493	56329493	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:56329493C>T	uc010ygf.1	-	4	759	c.48G>A	c.(46-48)GAG>GAA	p.E16E	NLRP11_uc002qmb.2_Intron|NLRP11_uc002qmc.2_Intron|NLRP11_uc010ete.1_RNA	NM_145007	NP_659444	P59045	NAL11_HUMAN	NLR family, pyrin domain containing 11	16	DAPIN.						ATP binding			ovary(3)|upper_aerodigestive_tract(1)|central_nervous_system(1)|skin(1)	6		Colorectal(82;0.0002)		GBM - Glioblastoma multiforme(193;0.0325)		CACTGAGATTCTCTAGATACC	0.428													12	21	---	---	---	---	PASS
NLRP4	147945	broad.mit.edu	37	19	56363641	56363641	+	Silent	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:56363641A>G	uc002qmd.3	+	2	617	c.195A>G	c.(193-195)GAA>GAG	p.E65E		NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	65	DAPIN.						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)		ACTATGAAGAACAACAAGCTT	0.438													15	45	---	---	---	---	PASS
NLRP4	147945	broad.mit.edu	37	19	56369181	56369181	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:56369181C>T	uc002qmd.3	+	3	844	c.422C>T	c.(421-423)CCC>CTC	p.P141L	NLRP4_uc002qmf.2_Missense_Mutation_p.P66L|NLRP4_uc010etf.2_5'UTR	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	141							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)		CTTTTTGCTCCCAAGGAAGCT	0.488													20	78	---	---	---	---	PASS
NLRP4	147945	broad.mit.edu	37	19	56369416	56369416	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:56369416C>T	uc002qmd.3	+	3	1079	c.657C>T	c.(655-657)ATC>ATT	p.I219I	NLRP4_uc002qmf.2_Silent_p.I144I|NLRP4_uc010etf.2_Silent_p.I50I	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	219	NACHT.						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)		TAACAGAGATCGTGTCTCAAC	0.537													30	68	---	---	---	---	PASS
NLRP4	147945	broad.mit.edu	37	19	56370083	56370083	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:56370083G>A	uc002qmd.3	+	3	1746	c.1324G>A	c.(1324-1326)GGG>AGG	p.G442R	NLRP4_uc002qmf.2_Missense_Mutation_p.G367R|NLRP4_uc010etf.2_Missense_Mutation_p.G273R	NM_134444	NP_604393	Q96MN2	NALP4_HUMAN	NLR family, pyrin domain containing 4	442	NACHT.						ATP binding	p.G442R(1)		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)		TCTGAAGTACGGGGAGCGTGA	0.532													7	58	---	---	---	---	PASS
NLRP13	126204	broad.mit.edu	37	19	56422029	56422029	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:56422029G>T	uc010ygg.1	-	6	2207	c.2182C>A	c.(2182-2184)CTG>ATG	p.L728M		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	728	LRR 1.						ATP binding			skin(4)|ovary(3)|pancreas(1)|lung(1)	9		Colorectal(82;3.48e-05)|Ovarian(87;0.0481)|Renal(1328;0.218)		GBM - Glioblastoma multiforme(193;0.0642)		AGCTCATGCAGATTCTCATTT	0.453													14	59	---	---	---	---	PASS
NLRP13	126204	broad.mit.edu	37	19	56423076	56423076	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:56423076G>A	uc010ygg.1	-	5	2132	c.2107C>T	c.(2107-2109)CTG>TTG	p.L703L		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	703							ATP binding			skin(4)|ovary(3)|pancreas(1)|lung(1)	9		Colorectal(82;3.48e-05)|Ovarian(87;0.0481)|Renal(1328;0.218)		GBM - Glioblastoma multiforme(193;0.0642)		ACTCACTCCAGAATTTCCAAG	0.393													18	58	---	---	---	---	PASS
NLRP13	126204	broad.mit.edu	37	19	56423566	56423566	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:56423566G>A	uc010ygg.1	-	5	1642	c.1617C>T	c.(1615-1617)TTC>TTT	p.F539F		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	539	NACHT.						ATP binding			skin(4)|ovary(3)|pancreas(1)|lung(1)	9		Colorectal(82;3.48e-05)|Ovarian(87;0.0481)|Renal(1328;0.218)		GBM - Glioblastoma multiforme(193;0.0642)		AAAACTCCTGGAAACTTAGGT	0.453													41	43	---	---	---	---	PASS
NLRP13	126204	broad.mit.edu	37	19	56423896	56423896	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:56423896C>T	uc010ygg.1	-	5	1312	c.1287G>A	c.(1285-1287)TGG>TGA	p.W429*		NM_176810	NP_789780	Q86W25	NAL13_HUMAN	NACHT, leucine rich repeat and PYD containing	429	NACHT.						ATP binding			skin(4)|ovary(3)|pancreas(1)|lung(1)	9		Colorectal(82;3.48e-05)|Ovarian(87;0.0481)|Renal(1328;0.218)		GBM - Glioblastoma multiforme(193;0.0642)		AACATACGGTCCAACACACCA	0.453													10	63	---	---	---	---	PASS
NLRP5	126206	broad.mit.edu	37	19	56515202	56515202	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:56515202C>T	uc002qmj.2	+	2	183	c.183C>T	c.(181-183)TCC>TCT	p.S61S	NLRP5_uc002qmi.2_Silent_p.S61S	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	61	DAPIN.					mitochondrion|nucleolus	ATP binding			ovary(3)|skin(2)|kidney(1)|central_nervous_system(1)	7		Colorectal(82;3.46e-05)|Ovarian(87;0.0481)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0326)		TCACCTTTTCCAGCTACGGGC	0.428													20	73	---	---	---	---	PASS
NLRP5	126206	broad.mit.edu	37	19	56569657	56569657	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:56569657C>T	uc002qmj.2	+	14	3351	c.3351C>T	c.(3349-3351)GCC>GCT	p.A1117A	NLRP5_uc002qmi.2_Silent_p.A1098A	NM_153447	NP_703148	P59047	NALP5_HUMAN	NACHT, LRR and PYD containing protein 5	1117						mitochondrion|nucleolus	ATP binding			ovary(3)|skin(2)|kidney(1)|central_nervous_system(1)	7		Colorectal(82;3.46e-05)|Ovarian(87;0.0481)|Renal(1328;0.157)		GBM - Glioblastoma multiforme(193;0.0326)		TCTCCTTGGCCCTTTCCTGCA	0.517													31	37	---	---	---	---	PASS
ZSCAN5B	342933	broad.mit.edu	37	19	56701471	56701471	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:56701471G>A	uc010ygh.1	-	4	1213	c.1213C>T	c.(1213-1215)CAC>TAC	p.H405Y		NM_001080456	NP_001073925	A6NJL1	ZSA5B_HUMAN	zinc finger and SCAN domain containing 5B	405	C2H2-type 2.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						TCGCCAGTGTGGACTCGCTGG	0.592													13	31	---	---	---	---	PASS
ZSCAN5B	342933	broad.mit.edu	37	19	56701472	56701472	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:56701472G>A	uc010ygh.1	-	4	1212	c.1212C>T	c.(1210-1212)GTC>GTT	p.V404V		NM_001080456	NP_001073925	A6NJL1	ZSA5B_HUMAN	zinc finger and SCAN domain containing 5B	404	C2H2-type 2.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(1)|skin(1)	2						CGCCAGTGTGGACTCGCTGGT	0.592													13	32	---	---	---	---	PASS
ZNF583	147949	broad.mit.edu	37	19	56935574	56935574	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:56935574G>A	uc010ygl.1	+	5	1712	c.1547G>A	c.(1546-1548)GGA>GAA	p.G516E	ZNF583_uc002qnc.2_Missense_Mutation_p.G516E|ZNF583_uc010ygm.1_Missense_Mutation_p.G516E	NM_001159860	NP_001153332	Q96ND8	ZN583_HUMAN	zinc finger protein 583	516					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0564)		ATTCATACTGGAGAAAGACCC	0.343													33	49	---	---	---	---	PASS
ZNF667	63934	broad.mit.edu	37	19	56969570	56969570	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:56969570C>T	uc002qnd.2	-	4	369	c.207G>A	c.(205-207)GGG>GGA	p.G69G	ZNF667_uc010etl.2_5'UTR|ZNF667_uc002qne.2_Silent_p.G69G|ZNF667_uc010etm.2_5'UTR	NM_022103	NP_071386	Q5HYK9	ZN667_HUMAN	zinc finger protein 667	69	KRAB.				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)		AGGGTGCTTTCCCTTTCTCCA	0.423													12	40	---	---	---	---	PASS
ZNF667	63934	broad.mit.edu	37	19	56973716	56973716	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:56973716G>A	uc002qnd.2	-	2	186	c.24C>T	c.(22-24)TCC>TCT	p.S8S	ZNF667_uc010etl.2_5'UTR|ZNF667_uc002qne.2_Silent_p.S8S|ZNF667_uc010etm.2_5'UTR	NM_022103	NP_071386	Q5HYK9	ZN667_HUMAN	zinc finger protein 667	8					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)		CCTTGGATTTGGATTTCCCCC	0.537													46	77	---	---	---	---	PASS
ZNF471	57573	broad.mit.edu	37	19	57035792	57035792	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:57035792C>T	uc002qnh.2	+	5	489	c.356C>T	c.(355-357)TCC>TTC	p.S119F		NM_020813	NP_065864	Q9BX82	ZN471_HUMAN	zinc finger protein 471	119					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)		CTTGAGTGTTCCACTTTTGAA	0.378													15	27	---	---	---	---	PASS
ZNF471	57573	broad.mit.edu	37	19	57035940	57035940	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:57035940C>T	uc002qnh.2	+	5	637	c.504C>T	c.(502-504)ATC>ATT	p.I168I		NM_020813	NP_065864	Q9BX82	ZN471_HUMAN	zinc finger protein 471	168					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)		GGAAATGTATCCATCTGGAAA	0.299													10	17	---	---	---	---	PASS
ZFP28	140612	broad.mit.edu	37	19	57060384	57060384	+	Missense_Mutation	SNP	G	A	A	rs151188111		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:57060384G>A	uc002qnj.2	+	5	652	c.581G>A	c.(580-582)GGA>GAA	p.G194E	ZFP28_uc002qni.2_Missense_Mutation_p.G194E|uc002qnk.1_Intron	NM_020828	NP_065879	Q8NHY6	ZFP28_HUMAN	zinc finger protein 28	194					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|Ovarian(87;0.243)		GBM - Glioblastoma multiforme(193;0.0302)		TTCTGCGAAGGAAAGCTATCC	0.418													7	21	---	---	---	---	PASS
ZNF470	388566	broad.mit.edu	37	19	57085888	57085888	+	Silent	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:57085888G>T	uc002qnl.3	+	4	862	c.186G>T	c.(184-186)GTG>GTT	p.V62V	ZNF470_uc010etn.2_RNA	NM_001001668	NP_001001668	Q6ECI4	ZN470_HUMAN	zinc finger protein 470	62	KRAB.				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)		TAGTTTCAGTGGGTAAGAGTA	0.408													5	86	---	---	---	---	PASS
ZNF71	58491	broad.mit.edu	37	19	57133813	57133813	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:57133813C>T	uc002qnm.3	+	3	1396	c.1158C>T	c.(1156-1158)ATC>ATT	p.I386I		NM_021216	NP_067039	Q9NQZ8	ZNF71_HUMAN	zinc finger protein 71	386	C2H2-type 10.					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)		AGTGCTACATCTGCAAGAAGC	0.632													18	47	---	---	---	---	PASS
ZNF835	90485	broad.mit.edu	37	19	57176237	57176237	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:57176237C>T	uc010ygo.1	-	2	396	c.396G>A	c.(394-396)TGG>TGA	p.W132*	ZNF835_uc010ygn.1_Nonsense_Mutation_p.W110*	NM_001005850	NP_001005850			zinc finger protein 835											pancreas(3)|skin(1)	4						CCCCGCATTTCCACGGCTTCT	0.637													7	50	---	---	---	---	PASS
ZNF835	90485	broad.mit.edu	37	19	57176473	57176473	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:57176473C>T	uc010ygo.1	-	2	160	c.160G>A	c.(160-162)GAA>AAA	p.E54K	ZNF835_uc010ygn.1_Missense_Mutation_p.E32K	NM_001005850	NP_001005850			zinc finger protein 835											pancreas(3)|skin(1)	4						GGACAGCTTTCCTGGTTTTCC	0.587													13	28	---	---	---	---	PASS
PEG3	5178	broad.mit.edu	37	19	57328601	57328601	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:57328601C>T	uc002qnu.2	-	7	1560	c.1209G>A	c.(1207-1209)TCG>TCA	p.S403S	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_Silent_p.S374S|PEG3_uc002qnv.2_Silent_p.S403S|PEG3_uc002qnw.2_Silent_p.S279S|PEG3_uc002qnx.2_Silent_p.S277S|PEG3_uc010etr.2_Silent_p.S403S	NM_001146186	NP_001139658	Q9GZU2	PEG3_HUMAN	paternally expressed 3 isoform 1	403					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)		GATCGTGAATCGAGCCCTTCC	0.478													16	76	---	---	---	---	PASS
USP29	57663	broad.mit.edu	37	19	57642683	57642683	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:57642683C>T	uc002qny.2	+	4	2996	c.2640C>T	c.(2638-2640)TTC>TTT	p.F880F		NM_020903	NP_065954	Q9HBJ7	UBP29_HUMAN	ubiquitin specific peptidase 29	880					protein modification process|ubiquitin-dependent protein catabolic process		cysteine-type peptidase activity|protein binding|ubiquitin thiolesterase activity			lung(6)|ovary(2)|breast(2)|pancreas(1)	11		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;0.026)		GGTATATCTTCTTTTACATGC	0.473													18	32	---	---	---	---	PASS
ZIM3	114026	broad.mit.edu	37	19	57649966	57649966	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:57649966C>T	uc002qnz.1	-	3	402	c.16G>A	c.(16-18)GGA>AGA	p.G6R		NM_052882	NP_443114	Q96PE6	ZIM3_HUMAN	zinc finger, imprinted 3	6					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			pancreas(1)|skin(1)	2		Colorectal(82;0.000256)|all_neural(62;0.0577)|Ovarian(87;0.243)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.026)		GTCACTCTTCCCTGTAACAAC	0.478													13	47	---	---	---	---	PASS
ZNF304	57343	broad.mit.edu	37	19	57869017	57869017	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:57869017A>G	uc010ygw.1	+	3	2168	c.1780A>G	c.(1780-1782)AAA>GAA	p.K594E	ZNF304_uc010etw.2_Missense_Mutation_p.K641E|ZNF304_uc010etx.2_Missense_Mutation_p.K552E	NM_020657	NP_065708	Q9HCX3	ZN304_HUMAN	zinc finger protein 304	594	C2H2-type 15.				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;0.0265)		TGAATGTGGGAAATTCTTTAG	0.478													13	50	---	---	---	---	PASS
VN1R1	57191	broad.mit.edu	37	19	57967657	57967657	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:57967657G>A	uc002qos.1	-	1	198	c.198C>T	c.(196-198)CTC>CTT	p.L66L	ZNF547_uc002qpm.3_Intron	NM_020633	NP_065684	Q9GZP7	VN1R1_HUMAN	vomeronasal 1 receptor 1	66	Helical; Name=1; (Potential).				response to pheromone	integral to membrane|plasma membrane	pheromone receptor activity			ovary(1)	1		Colorectal(82;5.46e-05)|all_neural(62;0.0218)|Ovarian(87;0.0694)|Renal(1328;0.157)|Breast(46;0.222)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0254)|Lung(386;0.171)		AAAAACAAAGGAGAAAGGAAT	0.418													9	35	---	---	---	---	PASS
ZNF550	162972	broad.mit.edu	37	19	58059242	58059242	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:58059242C>A	uc002qpe.1	-	2	247	c.247G>T	c.(247-249)GGG>TGG	p.G83W	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	124					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)		CTAGCTCTCCCCAACCTCGAA	0.532													6	146	---	---	---	---	PASS
ZNF416	55659	broad.mit.edu	37	19	58083606	58083606	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:58083606C>A	uc002qpf.2	-	4	1837	c.1666G>T	c.(1666-1668)GGG>TGG	p.G556W	ZNF547_uc002qpm.3_Intron	NM_017879	NP_060349	Q9BWM5	ZN416_HUMAN	zinc finger protein 416	556	C2H2-type 12.				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)		AAGGACTTCCCACATTTGCCA	0.498													5	92	---	---	---	---	PASS
ZNF671	79891	broad.mit.edu	37	19	58232072	58232072	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:58232072C>T	uc002qpz.3	-	4	1481	c.1382G>A	c.(1381-1383)AGC>AAC	p.S461N	ZNF776_uc002qpx.2_Intron|ZNF671_uc010eug.2_Missense_Mutation_p.S384N|ZNF671_uc010yhf.1_Missense_Mutation_p.S363N	NM_024833	NP_079109	Q8TAW3	ZN671_HUMAN	zinc finger protein 671	461	C2H2-type 8.				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)		GGAGATGCAGCTGAAAGCTTT	0.468													27	45	---	---	---	---	PASS
ZNF776	284309	broad.mit.edu	37	19	58265935	58265935	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:58265935G>A	uc002qpx.2	+	3	1660	c.1437G>A	c.(1435-1437)CAG>CAA	p.Q479Q	ZNF587_uc002qqb.2_Intron|ZNF776_uc002qqa.2_Silent_p.Q479Q	NM_173632	NP_775903	Q68DI1	ZN776_HUMAN	zinc finger protein 776	479	C2H2-type 10; degenerate.				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)		TTCGACATCAGCAGATTCACT	0.453													36	44	---	---	---	---	PASS
ZNF135	7694	broad.mit.edu	37	19	58574912	58574912	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:58574912G>A	uc010yhq.1	+						ZNF135_uc002qre.2_Intron|ZNF135_uc002qrd.1_Intron|ZNF135_uc002qrf.2_Intron|ZNF135_uc002qrg.2_Intron|ZNF135_uc010yhr.1_Intron	NM_003436	NP_003427	B4DHH9	B4DHH9_HUMAN	zinc finger protein 135 isoform 2						regulation of transcription, DNA-dependent	intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.147)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0161)		GTACCCAGGTGAGATGGGAGC	0.542													6	16	---	---	---	---	PASS
ZSCAN18	65982	broad.mit.edu	37	19	58601296	58601296	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:58601296G>A	uc002qri.2	-	2	648	c.339C>T	c.(337-339)TAC>TAT	p.Y113Y	ZSCAN18_uc002qrj.3_Silent_p.Y113Y|ZSCAN18_uc010yhs.1_Intron|ZSCAN18_uc002qrh.2_Silent_p.Y113Y|ZSCAN18_uc010yht.1_Silent_p.Y169Y|ZSCAN18_uc002qrk.1_Silent_p.Y113Y|ZSCAN18_uc002qrl.2_Silent_p.Y113Y	NM_001145543	NP_001139015	Q8TBC5	ZSC18_HUMAN	zinc finger and SCAN domain containing 18	113	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.114)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		AGCTCTCAGGGTACTGTGCCA	0.632													9	51	---	---	---	---	PASS
ZSCAN18	65982	broad.mit.edu	37	19	58601475	58601475	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:58601475C>T	uc002qri.2	-	2	469	c.160G>A	c.(160-162)GAA>AAA	p.E54K	ZSCAN18_uc002qrj.3_Missense_Mutation_p.E54K|ZSCAN18_uc010yhs.1_Intron|ZSCAN18_uc002qrh.2_Missense_Mutation_p.E54K|ZSCAN18_uc010yht.1_Missense_Mutation_p.E110K|ZSCAN18_uc002qrk.1_Missense_Mutation_p.E54K|ZSCAN18_uc002qrl.2_Missense_Mutation_p.E54K	NM_001145543	NP_001139015	Q8TBC5	ZSC18_HUMAN	zinc finger and SCAN domain containing 18	54	SCAN box.				viral reproduction	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding				0		Colorectal(82;0.000256)|all_neural(62;0.0412)|Breast(46;0.114)|Ovarian(87;0.156)		UCEC - Uterine corpus endometrioid carcinoma (67;0.168)|GBM - Glioblastoma multiforme(193;0.0152)		TAGACAAATTCCCGGAAACGC	0.677													11	14	---	---	---	---	PASS
RBCK1	10616	broad.mit.edu	37	20	389373	389373	+	5'UTR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:389373C>T	uc002wdp.3	+	1					RBCK1_uc010zpl.1_5'UTR|RBCK1_uc010zpm.1_RNA|RBCK1_uc002wdq.3_5'UTR|RBCK1_uc010fzy.2_RNA|RBCK1_uc002wdr.3_5'UTR|RBCK1_uc002wdo.2_RNA	NM_031229	NP_112506	Q9BYM8	HOIL1_HUMAN	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)				GCACGGTCCCCCCCAGGGGGA	0.687													6	2	---	---	---	---	PASS
PSMF1	9491	broad.mit.edu	37	20	1115883	1115883	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:1115883C>T	uc002wel.3	+	5	653	c.485C>T	c.(484-486)ACC>ATC	p.T162I	PSMF1_uc010zpo.1_Missense_Mutation_p.T74I|PSMF1_uc002wem.3_Missense_Mutation_p.T162I|PSMF1_uc010zpp.1_Intron|PSMF1_uc002wen.3_Missense_Mutation_p.T162I|PSMF1_uc002wep.3_Missense_Mutation_p.T113I	NM_178578	NP_848693	Q92530	PSMF1_HUMAN	proteasome inhibitor subunit 1	162	Pro-rich.				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						CCCCCTGCTACCGCCAGAGAG	0.587													20	16	---	---	---	---	PASS
PSMF1	9491	broad.mit.edu	37	20	1115884	1115884	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:1115884C>T	uc002wel.3	+	5	654	c.486C>T	c.(484-486)ACC>ACT	p.T162T	PSMF1_uc010zpo.1_Silent_p.T74T|PSMF1_uc002wem.3_Silent_p.T162T|PSMF1_uc010zpp.1_Intron|PSMF1_uc002wen.3_Silent_p.T162T|PSMF1_uc002wep.3_Silent_p.T113T	NM_178578	NP_848693	Q92530	PSMF1_HUMAN	proteasome inhibitor subunit 1	162	Pro-rich.				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						CCCCTGCTACCGCCAGAGAGG	0.582													20	16	---	---	---	---	PASS
PSMF1	9491	broad.mit.edu	37	20	1145091	1145091	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:1145091C>T	uc002wel.3	+	7	903	c.735C>T	c.(733-735)CCC>CCT	p.P245P	PSMF1_uc010zpo.1_Silent_p.P157P|PSMF1_uc002wem.3_Silent_p.P245P|PSMF1_uc010zpp.1_Silent_p.P183P|PSMF1_uc002wen.3_Silent_p.P245P|PSMF1_uc002wep.3_Silent_p.P196P	NM_178578	NP_848693	Q92530	PSMF1_HUMAN	proteasome inhibitor subunit 1	245	Pro-rich.				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						GCTTTGACCCCTTTGGACCCA	0.498													39	80	---	---	---	---	PASS
SNPH	9751	broad.mit.edu	37	20	1277021	1277021	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:1277021C>T	uc002wes.2	+	3	242	c.6C>T	c.(4-6)GCC>GCT	p.A2A	SNPH_uc002wet.2_Silent_p.A46A	NM_014723	NP_055538	O15079	SNPH_HUMAN	syntaphilin	2					synaptic vesicle docking involved in exocytosis	cell junction|integral to membrane|synapse|synaptosome	syntaxin-1 binding			ovary(2)	2						GCCTCATGGCCATGTCCCTGC	0.692													14	18	---	---	---	---	PASS
SIRPD	128646	broad.mit.edu	37	20	1515090	1515090	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:1515090G>A	uc002wfi.2	-							NM_178460	NP_848555	Q9H106	SIRPD_HUMAN	signal-regulatory protein delta precursor							extracellular region				ovary(1)|kidney(1)|skin(1)	3						CAGCAAGCCTGAAATACaata	0.294													9	21	---	---	---	---	PASS
SIRPB1	10326	broad.mit.edu	37	20	1559344	1559344	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:1559344G>A	uc010gai.2	-						SIRPB1_uc002wfk.3_Intron	NM_006065	NP_006056	O00241	SIRB1_HUMAN	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						GCCACTCCTGGAAAGGAGCAC	0.498													28	38	---	---	---	---	PASS
CPXM1	56265	broad.mit.edu	37	20	2776894	2776894	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2776894C>A	uc002wgu.2	-	9	1305	c.1241G>T	c.(1240-1242)CGG>CTG	p.R414L	CPXM1_uc010gas.2_Missense_Mutation_p.R414L	NM_019609	NP_062555	Q96SM3	CPXM1_HUMAN	carboxypeptidase X, member 1 precursor	414					cell adhesion|proteolysis		metallocarboxypeptidase activity|zinc ion binding			ovary(2)|skin(2)	4						GTGGCCTACCCGGTGGTAGGC	0.622													4	44	---	---	---	---	PASS
VPS16	64601	broad.mit.edu	37	20	2843558	2843558	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2843558G>T	uc002whe.2	+	13	1357	c.1309G>T	c.(1309-1311)GGG>TGG	p.G437W	VPS16_uc002whh.2_RNA|PTPRA_uc002whj.2_5'Flank|VPS16_uc002whf.2_Intron|VPS16_uc002whd.2_RNA|VPS16_uc002whg.2_Missense_Mutation_p.G123W|VPS16_uc002whi.2_5'Flank	NM_022575	NP_072097	Q9H269	VPS16_HUMAN	vacuolar protein sorting 16 isoform 1	437					intracellular protein transport	early endosome|HOPS complex|late endosome membrane|lysosomal membrane|recycling endosome				ovary(2)|pancreas(1)|skin(1)	4						CTATCACATCGGGATCCCGCT	0.582													5	130	---	---	---	---	PASS
VPS16	64601	broad.mit.edu	37	20	2847114	2847114	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:2847114G>T	uc002whe.2	+	24	2462	c.2414G>T	c.(2413-2415)CGG>CTG	p.R805L	VPS16_uc002whh.2_Intron|PTPRA_uc002whj.2_Intron|VPS16_uc002whf.2_Missense_Mutation_p.R661L|VPS16_uc002whd.2_RNA|VPS16_uc002whg.2_Missense_Mutation_p.R491L|VPS16_uc002whi.2_Missense_Mutation_p.R289L	NM_022575	NP_072097	Q9H269	VPS16_HUMAN	vacuolar protein sorting 16 isoform 1	805					intracellular protein transport	early endosome|HOPS complex|late endosome membrane|lysosomal membrane|recycling endosome				ovary(2)|pancreas(1)|skin(1)	4						ATCGAACACCGGAATGAGGCT	0.597													5	75	---	---	---	---	PASS
ATRN	8455	broad.mit.edu	37	20	3543878	3543878	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:3543878T>A	uc002wim.2	+	10	1744	c.1654T>A	c.(1654-1656)TTT>ATT	p.F552I	ATRN_uc002wil.2_Missense_Mutation_p.F552I	NM_139321	NP_647537	O75882	ATRN_HUMAN	attractin isoform 1	552	Extracellular (Potential).|Kelch 4.				inflammatory response	extracellular space|integral to plasma membrane	receptor activity|sugar binding			ovary(1)|breast(1)	2						GGACAGCCGATTTTTCCGTTA	0.378													40	60	---	---	---	---	PASS
ADAM33	80332	broad.mit.edu	37	20	3655426	3655426	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:3655426C>T	uc002wit.2	-	5	491	c.404G>A	c.(403-405)GGG>GAG	p.G135E	ADAM33_uc002wir.1_Missense_Mutation_p.G135E|ADAM33_uc002wis.2_5'Flank|ADAM33_uc002wiu.2_Missense_Mutation_p.G135E|ADAM33_uc002wiw.1_RNA|ADAM33_uc010gba.1_Intron|ADAM33_uc010gbb.1_Intron|ADAM33_uc002wix.1_Intron|ADAM33_uc010zqg.1_Missense_Mutation_p.G147E|ADAM33_uc010zqh.1_Missense_Mutation_p.G135E	NM_025220	NP_079496	Q9BZ11	ADA33_HUMAN	ADAM metallopeptidase domain 33 isoform alpha	135	Extracellular (Potential).|Cysteine switch (By similarity).				proteolysis	integral to membrane	metalloendopeptidase activity|zinc ion binding			large_intestine(2)|ovary(1)|skin(1)	4						TCACCTCATCCCAGAGCAGGT	0.627													16	22	---	---	---	---	PASS
SIGLEC1	6614	broad.mit.edu	37	20	3675063	3675063	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:3675063C>T	uc002wja.2	-	12	3061	c.3061G>A	c.(3061-3063)GAT>AAT	p.D1021N	SIGLEC1_uc002wjb.1_5'Flank|SIGLEC1_uc002wiz.3_Missense_Mutation_p.D1021N	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor	1021	Ig-like C2-type 10.|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						ACAAGGCGATCCCCGTGGAGC	0.662													4	11	---	---	---	---	PASS
SIGLEC1	6614	broad.mit.edu	37	20	3677547	3677547	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:3677547G>A	uc002wja.2	-						SIGLEC1_uc002wiz.3_Intron	NM_023068	NP_075556	Q9BZZ2	SN_HUMAN	sialoadhesin precursor						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						TGCAGGAACAGAGGGAGCTGA	0.607													5	14	---	---	---	---	PASS
CDC25B	994	broad.mit.edu	37	20	3781422	3781422	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:3781422G>A	uc002wjn.2	+	6	1270	c.492G>A	c.(490-492)CGG>CGA	p.R164R	CDC25B_uc010zqk.1_Silent_p.R100R|CDC25B_uc010zql.1_Silent_p.R86R|CDC25B_uc010zqm.1_Silent_p.R100R|CDC25B_uc002wjl.2_Silent_p.R52R|CDC25B_uc002wjm.2_Silent_p.R52R|CDC25B_uc002wjo.2_Silent_p.R150R|CDC25B_uc002wjp.2_Intron|CDC25B_uc002wjq.2_Intron|CDC25B_uc010gbc.2_5'Flank	NM_021873	NP_068659	P30305	MPIP2_HUMAN	cell division cycle 25B isoform 1	164					cell division|G2/M transition of mitotic cell cycle|mitosis|positive regulation of cell proliferation	cytosol|microtubule organizing center|nucleoplasm	protein binding|protein tyrosine phosphatase activity			lung(3)|ovary(2)	5						CCGTGCTTCGGAACATCACCA	0.667													19	19	---	---	---	---	PASS
CHGB	1114	broad.mit.edu	37	20	5903242	5903242	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:5903242A>G	uc002wmg.2	+	4	758	c.452A>G	c.(451-453)GAA>GGA	p.E151G	CHGB_uc010zqz.1_5'UTR	NM_001819	NP_001810	P05060	SCG1_HUMAN	chromogranin B precursor	151						extracellular region	hormone activity			breast(3)|skin(2)|ovary(1)	6						GTCTCTGAAGAAGTGAAGACA	0.572													24	22	---	---	---	---	PASS
CHGB	1114	broad.mit.edu	37	20	5903364	5903364	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:5903364G>A	uc002wmg.2	+	4	880	c.574G>A	c.(574-576)GGA>AGA	p.G192R	CHGB_uc010zqz.1_5'UTR	NM_001819	NP_001810	P05060	SCG1_HUMAN	chromogranin B precursor	192						extracellular region	hormone activity			breast(3)|skin(2)|ovary(1)	6						TGAAGAGCCAGGAGAGACACA	0.488													30	92	---	---	---	---	PASS
CRLS1	54675	broad.mit.edu	37	20	5990442	5990442	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:5990442C>T	uc002wmn.3	+	2	482	c.328C>T	c.(328-330)CCG>TCG	p.P110S	CRLS1_uc010gbq.2_RNA|CRLS1_uc010gbr.2_Missense_Mutation_p.P11S|CRLS1_uc010gbs.1_5'UTR	NM_019095	NP_061968	Q9UJA2	CRLS1_HUMAN	cardiolipin synthase 1 isoform 1	110	Helical; (Potential).				phospholipid biosynthetic process	integral to membrane|mitochondrial inner membrane	phosphotransferase activity, for other substituted phosphate groups				0						ATGGACAATCCCGAATATGTT	0.318													13	36	---	---	---	---	PASS
CRLS1	54675	broad.mit.edu	37	20	5990443	5990443	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:5990443C>T	uc002wmn.3	+	2	483	c.329C>T	c.(328-330)CCG>CTG	p.P110L	CRLS1_uc010gbq.2_RNA|CRLS1_uc010gbr.2_Missense_Mutation_p.P11L|CRLS1_uc010gbs.1_5'UTR	NM_019095	NP_061968	Q9UJA2	CRLS1_HUMAN	cardiolipin synthase 1 isoform 1	110	Helical; (Potential).				phospholipid biosynthetic process	integral to membrane|mitochondrial inner membrane	phosphotransferase activity, for other substituted phosphate groups				0						TGGACAATCCCGAATATGTTG	0.318													13	36	---	---	---	---	PASS
LRRN4	164312	broad.mit.edu	37	20	6022121	6022121	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:6022121C>A	uc002wmo.2	-	5	1994	c.1770G>T	c.(1768-1770)GAG>GAT	p.E590D		NM_152611	NP_689824	Q8WUT4	LRRN4_HUMAN	leucine rich repeat neuronal 4 precursor	590	Extracellular (Potential).|Fibronectin type-III.					integral to membrane				skin(3)	3						TGTCCGTGGTCTCCGTCACCC	0.711													19	32	---	---	---	---	PASS
HAO1	54363	broad.mit.edu	37	20	7895073	7895073	+	Intron	SNP	A	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:7895073A>C	uc002wmw.1	-						HAO1_uc010gbu.2_Intron	NM_017545	NP_060015	Q9UJM8	HAOX1_HUMAN	hydroxyacid oxidase 1						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						CAGGCTGAGAAAGAAAGGGGA	0.502													9	28	---	---	---	---	PASS
PLCB1	23236	broad.mit.edu	37	20	8862318	8862318	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:8862318C>T	uc002wnb.2	+	32	3476	c.3473C>T	c.(3472-3474)CCC>CTC	p.P1158L	PLCB1_uc002wna.2_3'UTR	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	1158					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						AAAAGACTGCCCCTCGAGATT	0.478													71	159	---	---	---	---	PASS
PLCB1	23236	broad.mit.edu	37	20	8862319	8862319	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:8862319C>T	uc002wnb.2	+	32	3477	c.3474C>T	c.(3472-3474)CCC>CCT	p.P1158P	PLCB1_uc002wna.2_3'UTR	NM_015192	NP_056007	Q9NQ66	PLCB1_HUMAN	phosphoinositide-specific phospholipase C beta 1	1158					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						AAAGACTGCCCCTCGAGATTT	0.473													72	160	---	---	---	---	PASS
PLCB4	5332	broad.mit.edu	37	20	9424652	9424652	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:9424652G>A	uc002wnf.2	+	29	2889	c.2753G>A	c.(2752-2754)AGG>AAG	p.R918K	PLCB4_uc010gbw.1_Missense_Mutation_p.R918K|PLCB4_uc010gbx.2_Missense_Mutation_p.R930K|PLCB4_uc002wne.2_Missense_Mutation_p.R918K|PLCB4_uc002wnh.2_Missense_Mutation_p.R765K	NM_182797	NP_877949	Q15147	PLCB4_HUMAN	phospholipase C beta 4 isoform b	918					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						CCTCAAGTAAGGATAGAAGAC	0.299													20	57	---	---	---	---	PASS
SEL1L2	80343	broad.mit.edu	37	20	13846116	13846116	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:13846116G>A	uc010gcf.2	-	16	1531	c.1449C>T	c.(1447-1449)TTC>TTT	p.F483F	SEL1L2_uc002woq.3_Silent_p.F344F|SEL1L2_uc010zrl.1_Intron|SEL1L2_uc002wor.2_Intron	NM_025229	NP_079505	Q5TEA6	SE1L2_HUMAN	sel-1 suppressor of lin-12-like 2 precursor	483	Extracellular (Potential).					integral to membrane	binding			ovary(2)	2						AAGCTGTCAGGAATTTCTCAG	0.433													30	49	---	---	---	---	PASS
PCSK2	5126	broad.mit.edu	37	20	17208137	17208137	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:17208137C>T	uc002wpm.2	+						PCSK2_uc002wpl.2_Intron|PCSK2_uc010zrm.1_Intron	NM_002594	NP_002585	P16519	NEC2_HUMAN	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)	GGTAAGCTCTCCCATGCATTT	0.507													4	10	---	---	---	---	PASS
CSRP2BP	57325	broad.mit.edu	37	20	18123429	18123429	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:18123429C>T	uc002wqj.2	+	2	747	c.125C>T	c.(124-126)TCC>TTC	p.S42F	CSRP2BP_uc002wqk.2_5'Flank	NM_020536	NP_065397	Q9H8E8	CSR2B_HUMAN	CSRP2 binding protein	42					histone H3 acetylation	Ada2/Gcn5/Ada3 transcription activator complex|cytoplasm	LIM domain binding|N-acetyltransferase activity			lung(3)|ovary(2)|skin(1)	6						ATCGTCGAATCCGAGGATCAG	0.547													28	41	---	---	---	---	PASS
CSRP2BP	57325	broad.mit.edu	37	20	18123430	18123430	+	Silent	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:18123430C>A	uc002wqj.2	+	2	748	c.126C>A	c.(124-126)TCC>TCA	p.S42S	CSRP2BP_uc002wqk.2_5'Flank	NM_020536	NP_065397	Q9H8E8	CSR2B_HUMAN	CSRP2 binding protein	42					histone H3 acetylation	Ada2/Gcn5/Ada3 transcription activator complex|cytoplasm	LIM domain binding|N-acetyltransferase activity			lung(3)|ovary(2)|skin(1)	6						TCGTCGAATCCGAGGATCAGG	0.547													28	42	---	---	---	---	PASS
SEC23B	10483	broad.mit.edu	37	20	18505185	18505185	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:18505185C>T	uc002wqz.1	+	5	918	c.475C>T	c.(475-477)CCT>TCT	p.P159S	SEC23B_uc002wra.1_Missense_Mutation_p.P159S|SEC23B_uc002wrb.1_Missense_Mutation_p.P159S|SEC23B_uc010zsb.1_Missense_Mutation_p.P141S|SEC23B_uc002wrc.1_Missense_Mutation_p.P159S	NM_006363	NP_006354	Q15437	SC23B_HUMAN	Sec23 homolog B	159					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						GAGTCTTCTTCCTCCAGATGC	0.493													37	56	---	---	---	---	PASS
C20orf79	140856	broad.mit.edu	37	20	18794465	18794465	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:18794465G>A	uc002wrk.2	+	1	96	c.6G>A	c.(4-6)TGG>TGA	p.W2*	uc002wrj.1_Intron	NM_178483	NP_848578	Q9UJQ7	CT079_HUMAN	hypothetical protein LOC140856	2							sterol binding			skin(3)	3						GGAAGATGTGGAAGAGAAGTG	0.512													27	51	---	---	---	---	PASS
SLC24A3	57419	broad.mit.edu	37	20	19677433	19677433	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:19677433C>T	uc002wrl.2	+							NM_020689	NP_065740	Q9HC58	NCKX3_HUMAN	solute carrier family 24							integral to membrane|plasma membrane	calcium, potassium:sodium antiporter activity|symporter activity			ovary(1)	1						TCTTCCTGCTCCTTCTAGGTC	0.562													10	25	---	---	---	---	PASS
C20orf26	26074	broad.mit.edu	37	20	20071504	20071504	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:20071504G>A	uc002wru.2	+	7	659	c.583G>A	c.(583-585)GAT>AAT	p.D195N	C20orf26_uc010gcw.1_Missense_Mutation_p.D149N|C20orf26_uc010zse.1_Missense_Mutation_p.D195N|C20orf26_uc010zsf.1_Missense_Mutation_p.D195N	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074	195										ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		AGACCATGACGATCTCATGCC	0.333													42	91	---	---	---	---	PASS
RALGAPA2	57186	broad.mit.edu	37	20	20571878	20571878	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:20571878G>A	uc002wrz.2	-	17	2427	c.2284C>T	c.(2284-2286)CTT>TTT	p.L762F	RALGAPA2_uc010gcx.2_Missense_Mutation_p.L466F|RALGAPA2_uc010zsg.1_Missense_Mutation_p.L210F	NM_020343	NP_065076	Q2PPJ7	RGPA2_HUMAN	akt substrate AS250	762					activation of Ral GTPase activity	cytosol|nucleus	protein heterodimerization activity|Ral GTPase activator activity			ovary(1)	1						CTGCTCCGAAGGACCTGCTGC	0.507													13	27	---	---	---	---	PASS
XRN2	22803	broad.mit.edu	37	20	21349207	21349207	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:21349207C>T	uc002wsf.1	+	27	2658	c.2563C>T	c.(2563-2565)CAG>TAG	p.Q855*	XRN2_uc002wsg.1_Nonsense_Mutation_p.Q779*|XRN2_uc010zsk.1_Nonsense_Mutation_p.Q801*	NM_012255	NP_036387	Q9H0D6	XRN2_HUMAN	5'-3' exoribonuclease 2	855					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						AGGACAAGCCCAGATTCCAAA	0.398													30	62	---	---	---	---	PASS
CST8	10047	broad.mit.edu	37	20	23472424	23472424	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:23472424C>T	uc002wth.1	+	2	477	c.120C>T	c.(118-120)GCC>GCT	p.A40A		NM_005492	NP_005483	O60676	CST8_HUMAN	cystatin 8 precursor	40						extracellular region	cysteine-type endopeptidase inhibitor activity				0	Colorectal(13;0.0431)|Lung NSC(19;0.235)					CCGTCAATGCCTCAAATGCCA	0.502													45	119	---	---	---	---	PASS
CST8	10047	broad.mit.edu	37	20	23472433	23472433	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:23472433C>T	uc002wth.1	+	2	486	c.129C>T	c.(127-129)GCC>GCT	p.A43A		NM_005492	NP_005483	O60676	CST8_HUMAN	cystatin 8 precursor	43						extracellular region	cysteine-type endopeptidase inhibitor activity				0	Colorectal(13;0.0431)|Lung NSC(19;0.235)					CCTCAAATGCCAACGTGAAGC	0.507													48	128	---	---	---	---	PASS
CST4	1472	broad.mit.edu	37	20	23666597	23666597	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:23666597G>A	uc002wto.1	-	3	416	c.360C>T	c.(358-360)TTC>TTT	p.F120F		NM_001899	NP_001890	P01036	CYTS_HUMAN	cystatin S precursor	120						extracellular region	cysteine-type endopeptidase inhibitor activity			breast(1)	1	Lung NSC(19;0.0789)|Colorectal(13;0.0993)|all_lung(19;0.169)					CGTAGATCTCGAAAGAGCACA	0.537													15	24	---	---	---	---	PASS
CST5	1473	broad.mit.edu	37	20	23856875	23856875	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:23856875G>A	uc002wtr.1	-	3	446	c.379C>T	c.(379-381)CCC>TCC	p.P127S		NM_001900	NP_001891	P28325	CYTD_HUMAN	cystatin D precursor	127						extracellular region	cysteine-type endopeptidase inhibitor activity|protein binding				0						TCCTCCCAGGGAACTTCATTG	0.478													18	44	---	---	---	---	PASS
C20orf3	57136	broad.mit.edu	37	20	24952185	24952185	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:24952185C>T	uc002wty.2	-	5	550	c.449G>A	c.(448-450)GGG>GAG	p.G150E	C20orf3_uc002wtz.2_Missense_Mutation_p.G150E|C20orf3_uc010zsw.1_Missense_Mutation_p.G150E	NM_020531	NP_065392	Q9HDC9	APMAP_HUMAN	chromosome 20 open reading frame 3	150	Extracellular (Potential).				biosynthetic process	cell surface|integral to membrane	arylesterase activity|strictosidine synthase activity			ovary(1)	1						CAGGGGTCTCCCACACACAGG	0.493													33	63	---	---	---	---	PASS
ENTPD6	955	broad.mit.edu	37	20	25198193	25198193	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:25198193G>A	uc002wuj.2	+	9	1034	c.854G>A	c.(853-855)AGG>AAG	p.R285K	ENTPD6_uc010zsy.1_Missense_Mutation_p.R285K|ENTPD6_uc010gdj.1_Missense_Mutation_p.R257K|ENTPD6_uc010zsz.1_Missense_Mutation_p.R67K|ENTPD6_uc002wum.2_Missense_Mutation_p.R268K|ENTPD6_uc010zta.1_Missense_Mutation_p.R285K|ENTPD6_uc002wun.2_Missense_Mutation_p.R285K|ENTPD6_uc002wuk.2_Missense_Mutation_p.R284K|ENTPD6_uc002wul.2_Missense_Mutation_p.R284K|ENTPD6_uc010ztb.1_Missense_Mutation_p.R257K|ENTPD6_uc010ztc.1_Missense_Mutation_p.R257K|ENTPD6_uc002wuo.2_Missense_Mutation_p.R37K|ENTPD6_uc010ztd.1_Missense_Mutation_p.R67K	NM_001247	NP_001238	O75354	ENTP6_HUMAN	ectonucleoside triphosphate diphosphohydrolase 6	285	Lumenal (Potential).					Golgi membrane|integral to membrane	nucleoside-diphosphatase activity				0						ATGTTTAACAGGACCTACAAG	0.597													21	37	---	---	---	---	PASS
ENTPD6	955	broad.mit.edu	37	20	25198194	25198194	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:25198194G>A	uc002wuj.2	+	9	1035	c.855G>A	c.(853-855)AGG>AGA	p.R285R	ENTPD6_uc010zsy.1_Silent_p.R285R|ENTPD6_uc010gdj.1_Silent_p.R257R|ENTPD6_uc010zsz.1_Silent_p.R67R|ENTPD6_uc002wum.2_Silent_p.R268R|ENTPD6_uc010zta.1_Silent_p.R285R|ENTPD6_uc002wun.2_Silent_p.R285R|ENTPD6_uc002wuk.2_Silent_p.R284R|ENTPD6_uc002wul.2_Silent_p.R284R|ENTPD6_uc010ztb.1_Silent_p.R257R|ENTPD6_uc010ztc.1_Silent_p.R257R|ENTPD6_uc002wuo.2_Silent_p.R37R|ENTPD6_uc010ztd.1_Silent_p.R67R	NM_001247	NP_001238	O75354	ENTP6_HUMAN	ectonucleoside triphosphate diphosphohydrolase 6	285	Lumenal (Potential).					Golgi membrane|integral to membrane	nucleoside-diphosphatase activity				0						TGTTTAACAGGACCTACAAGC	0.597													22	36	---	---	---	---	PASS
PYGB	5834	broad.mit.edu	37	20	25257400	25257400	+	Intron	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:25257400T>A	uc002wup.2	+							NM_002862	NP_002853	P11216	PYGB_HUMAN	brain glycogen phosphorylase						glucose metabolic process|glycogen catabolic process	cytoplasm	glycogen phosphorylase activity|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					Pyridoxal Phosphate(DB00114)	GACTGTACGTTCCGTGGTTCT	0.622													10	21	---	---	---	---	PASS
PYGB	5834	broad.mit.edu	37	20	25257401	25257401	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:25257401C>T	uc002wup.2	+							NM_002862	NP_002853	P11216	PYGB_HUMAN	brain glycogen phosphorylase						glucose metabolic process|glycogen catabolic process	cytoplasm	glycogen phosphorylase activity|pyridoxal phosphate binding			central_nervous_system(1)|skin(1)	2					Pyridoxal Phosphate(DB00114)	ACTGTACGTTCCGTGGTTCTT	0.627													10	19	---	---	---	---	PASS
DEFB116	245930	broad.mit.edu	37	20	29891155	29891155	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:29891155G>A	uc010ztm.1	-	2	169	c.169C>T	c.(169-171)CAA>TAA	p.Q57*		NM_001037731	NP_001032820	Q30KQ4	DB116_HUMAN	beta-defensin 116 precursor	57					defense response to bacterium	extracellular region					0	all_hematologic(12;0.158)		Colorectal(19;0.00254)|COAD - Colon adenocarcinoma(19;0.0347)			GTTAAGTATTGGATTTCATAT	0.438													76	145	---	---	---	---	PASS
DEFB119	245932	broad.mit.edu	37	20	29965061	29965061	+	Silent	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:29965061T>A	uc002wvt.2	-	2	363	c.243A>T	c.(241-243)CCA>CCT	p.P81P	DEFB119_uc002wvs.2_3'UTR	NM_153289	NP_695021	Q8N690	DB119_HUMAN	defensin, beta 119 isoform a precursor	81					defense response to bacterium	extracellular region					0	all_hematologic(12;0.158)		Colorectal(19;0.00254)|COAD - Colon adenocarcinoma(19;0.0347)			AAGGTAGTCTTGGCCACTGCT	0.483													36	59	---	---	---	---	PASS
DEFB124	245937	broad.mit.edu	37	20	30053477	30053477	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:30053477G>A	uc002wvz.1	-							NM_001037500	NP_001032589	Q8NES8	DB124_HUMAN	beta-defensin 124 precursor						defense response to bacterium	extracellular region					0	Lung NSC(7;0.000139)|all_lung(7;0.000197)|all_hematologic(12;0.158)		Colorectal(19;0.00254)|COAD - Colon adenocarcinoma(19;0.0347)			CTAAACAGAGGAAAACCACAG	0.512													21	57	---	---	---	---	PASS
REM1	28954	broad.mit.edu	37	20	30070255	30070255	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:30070255G>A	uc002wwa.2	+	4	873	c.589G>A	c.(589-591)GCA>ACA	p.A197T		NM_014012	NP_054731	O75628	REM1_HUMAN	RAS-like GTP-binding protein REM	197	GTP (By similarity).				small GTPase mediated signal transduction	membrane	calmodulin binding|GTP binding|GTPase activity			lung(2)|pancreas(2)	4	all_cancers(5;0.000119)|Lung NSC(7;1.32e-05)|all_lung(7;2.14e-05)|all_hematologic(12;0.158)|Ovarian(7;0.198)		Colorectal(19;0.00254)|COAD - Colon adenocarcinoma(19;0.0347)			GGGCAACAAGGCAGACTTGGC	0.632													8	39	---	---	---	---	PASS
MYLK2	85366	broad.mit.edu	37	20	30419494	30419494	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:30419494C>T	uc002wwq.2	+						MYLK2_uc002wws.2_Intron|MYLK2_uc010gdw.1_Intron	NM_033118	NP_149109	Q9H1R3	MYLK2_HUMAN	skeletal myosin light chain kinase						cardiac muscle tissue morphogenesis|regulation of muscle filament sliding		ATP binding|calmodulin binding|calmodulin-dependent protein kinase activity|myosin light chain kinase activity			lung(2)|skin(2)|ovary(1)|central_nervous_system(1)	6			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			CCCTGCTATCCCCTCCCTCTA	0.498													19	22	---	---	---	---	PASS
DUSP15	128853	broad.mit.edu	37	20	30450427	30450427	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:30450427T>C	uc002wwu.1	-	6	450	c.373A>G	c.(373-375)AAC>GAC	p.N125D	DUSP15_uc002wwv.1_Missense_Mutation_p.N25D|DUSP15_uc002www.1_Missense_Mutation_p.N25D|DUSP15_uc002wwx.1_Missense_Mutation_p.N128D			Q9H1R2	DUS15_HUMAN	RecName: Full=Dual specificity protein phosphatase 15;          EC=3.1.3.48;          EC=3.1.3.16; AltName: Full=Vaccinia virus VH1-related dual-specific protein phosphatase Y; AltName: Full=VH1-related member Y;	125	Tyrosine-protein phosphatase.					cytoplasm|plasma membrane	protein binding|protein tyrosine phosphatase activity|protein tyrosine/serine/threonine phosphatase activity			pancreas(1)	1			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			AAGCCTGGGTTGGGGTTGGCG	0.612													20	60	---	---	---	---	PASS
XKR7	343702	broad.mit.edu	37	20	30584351	30584351	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:30584351G>A	uc002wxe.2	+	3	1005	c.831G>A	c.(829-831)CTG>CTA	p.L277L		NM_001011718	NP_001011718	Q5GH72	XKR7_HUMAN	XK, Kell blood group complex subunit-related	277	Helical; (Potential).					integral to membrane				ovary(1)|breast(1)|skin(1)	3			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			CCTGGACGCTGGCCTCCTACC	0.697													9	10	---	---	---	---	PASS
XKR7	343702	broad.mit.edu	37	20	30584352	30584352	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:30584352G>A	uc002wxe.2	+	3	1006	c.832G>A	c.(832-834)GCC>ACC	p.A278T		NM_001011718	NP_001011718	Q5GH72	XKR7_HUMAN	XK, Kell blood group complex subunit-related	278	Helical; (Potential).					integral to membrane				ovary(1)|breast(1)|skin(1)	3			Colorectal(19;0.00306)|COAD - Colon adenocarcinoma(19;0.0347)			CTGGACGCTGGCCTCCTACCA	0.697													10	10	---	---	---	---	PASS
ASXL1	171023	broad.mit.edu	37	20	31021323	31021323	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31021323C>T	uc002wxs.2	+	11	1748	c.1322C>T	c.(1321-1323)TCT>TTT	p.S441F	ASXL1_uc010geb.2_Missense_Mutation_p.S332F	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1	441					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						GATGCAAAATCTGTGGCCTCA	0.537			F|N|Mis		MDS|CMML								53	78	---	---	---	---	PASS
ASXL1	171023	broad.mit.edu	37	20	31023865	31023865	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31023865C>T	uc002wxs.2	+	12	3776	c.3350C>T	c.(3349-3351)CCC>CTC	p.P1117L	ASXL1_uc010geb.2_Missense_Mutation_p.P1008L	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1	1117					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						GGTAGCTTGCCCCTAGAGAAG	0.557			F|N|Mis		MDS|CMML								18	36	---	---	---	---	PASS
ASXL1	171023	broad.mit.edu	37	20	31023866	31023866	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31023866C>T	uc002wxs.2	+	12	3777	c.3351C>T	c.(3349-3351)CCC>CCT	p.P1117P	ASXL1_uc010geb.2_Silent_p.P1008P	NM_015338	NP_056153	Q8IXJ9	ASXL1_HUMAN	additional sex combs like 1 isoform 1	1117					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						GTAGCTTGCCCCTAGAGAAGG	0.557			F|N|Mis		MDS|CMML								18	38	---	---	---	---	PASS
C20orf185	359710	broad.mit.edu	37	20	31659915	31659915	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31659915G>A	uc002wym.1	+	13	1266	c.1266G>A	c.(1264-1266)TCG>TCA	p.S422S		NM_182658	NP_872599	P59826	LPLC3_HUMAN	antimicrobial peptide RYA3 precursor	422					innate immune response	cytoplasm|extracellular region	lipid binding|protein binding			ovary(4)	4						TGCAGGGATCGCGTTTAGAAG	0.567													19	24	---	---	---	---	PASS
C20orf70	140683	broad.mit.edu	37	20	31757060	31757060	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31757060G>A	uc002wyo.1	+	2	180	c.109G>A	c.(109-111)GAA>AAA	p.E37K		NM_080574	NP_542141	Q96DR5	SPLC2_HUMAN	chromosome 20 open reading frame 70 precursor	37						extracellular region	lipid binding			ovary(1)|central_nervous_system(1)	2						GGATAAGCTGGAACCTGTTCT	0.458													27	53	---	---	---	---	PASS
C20orf70	140683	broad.mit.edu	37	20	31763316	31763316	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:31763316G>A	uc002wyo.1	+	5	585	c.514G>A	c.(514-516)GGA>AGA	p.G172R		NM_080574	NP_542141	Q96DR5	SPLC2_HUMAN	chromosome 20 open reading frame 70 precursor	172				G -> R (in Ref. 1; AAL28113).		extracellular region	lipid binding			ovary(1)|central_nervous_system(1)	2						TGCCGTCCTGGGAGAATGCGC	0.527													58	90	---	---	---	---	PASS
ZNF341	84905	broad.mit.edu	37	20	32340998	32340998	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:32340998C>T	uc002wzy.2	+	5	530	c.510C>T	c.(508-510)TCC>TCT	p.S170S	ZNF341_uc002wzx.2_Silent_p.S170S|ZNF341_uc010geq.2_Silent_p.S80S|ZNF341_uc010ger.2_RNA	NM_032819	NP_116208	Q9BYN7	ZN341_HUMAN	zinc finger protein 341	170	Pro-rich.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						ACATGCATTCCGTGCCCAGCT	0.289													21	50	---	---	---	---	PASS
ITCH	83737	broad.mit.edu	37	20	33067442	33067442	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:33067442T>A	uc010geu.1	+	19	1981	c.1789T>A	c.(1789-1791)TTC>ATC	p.F597I	ITCH_uc002xak.2_Missense_Mutation_p.F556I|ITCH_uc010zuj.1_Missense_Mutation_p.F446I	NM_031483	NP_113671	Q96J02	ITCH_HUMAN	itchy homolog E3 ubiquitin protein ligase	597	HECT.				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						CAGAGAATGGTTCTTTCTTTT	0.368													23	29	---	---	---	---	PASS
NCOA6	23054	broad.mit.edu	37	20	33330887	33330887	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:33330887C>T	uc002xav.2	-	12	5744	c.3173G>A	c.(3172-3174)AGG>AAG	p.R1058K	NCOA6_uc002xaw.2_Missense_Mutation_p.R1058K	NM_014071	NP_054790	Q14686	NCOA6_HUMAN	nuclear receptor coactivator 6	1058	NCOA1-binding region.				brain development|cellular lipid metabolic process|DNA recombination|DNA repair|DNA replication|estrogen receptor signaling pathway|glucocorticoid receptor signaling pathway|heart development|myeloid cell differentiation|positive regulation of transcription from RNA polymerase II promoter|response to hormone stimulus|transcription initiation from RNA polymerase II promoter	transcription factor complex	chromatin binding|enzyme binding|estrogen receptor binding|ligand-dependent nuclear receptor transcription coactivator activity|retinoid X receptor binding|thyroid hormone receptor binding			ovary(3)|breast(3)|central_nervous_system(1)	7						CAGGGGGCCCCTTGGAGGATG	0.483													48	55	---	---	---	---	PASS
GGT7	2686	broad.mit.edu	37	20	33449261	33449261	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:33449261G>A	uc002xay.2	-	4	705	c.662C>T	c.(661-663)TCC>TTC	p.S221F	GGT7_uc002xaz.1_Missense_Mutation_p.S238F|GGT7_uc002xba.1_Missense_Mutation_p.S221F	NM_178026	NP_821158	Q9UJ14	GGT7_HUMAN	gamma-glutamyltransferase 7	221	Extracellular (Potential).				glutathione biosynthetic process	integral to membrane	acyltransferase activity|gamma-glutamyltransferase activity			ovary(1)	1						GGTCTCCCAGGATCTTTGCAG	0.527													13	35	---	---	---	---	PASS
MYH7B	57644	broad.mit.edu	37	20	33575706	33575706	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:33575706G>A	uc002xbi.1	+	16	1623	c.1531G>A	c.(1531-1533)GAG>AAG	p.E511K	MIR499_hsa-mir-499|MI0003183_5'Flank	NM_020884	NP_065935	A7E2Y1	MYH7B_HUMAN	myosin, heavy polypeptide 7B, cardiac muscle,	469	Myosin head-like.					membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)			CGCTGGGTTTGAGATCTTTGA	0.602													34	54	---	---	---	---	PASS
MYH7B	57644	broad.mit.edu	37	20	33581033	33581033	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:33581033G>A	uc002xbi.1	+							NM_020884	NP_065935	A7E2Y1	MYH7B_HUMAN	myosin, heavy polypeptide 7B, cardiac muscle,							membrane|myosin filament	actin binding|ATP binding|motor activity			ovary(1)|breast(1)	2			BRCA - Breast invasive adenocarcinoma(18;0.00691)			ACCAAGGTCGGGGCACTGTGG	0.622													17	31	---	---	---	---	PASS
FAM83C	128876	broad.mit.edu	37	20	33875038	33875038	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:33875038G>A	uc010zux.1	-	4	1662	c.1544C>T	c.(1543-1545)CCC>CTC	p.P515L	EIF6_uc002xbv.1_5'Flank|EIF6_uc002xbx.1_5'Flank|EIF6_uc002xbz.1_5'Flank|EIF6_uc002xby.1_5'Flank|FAM83C_uc002xcb.1_Missense_Mutation_p.P170L	NM_178468	NP_848563	Q9BQN1	FA83C_HUMAN	hypothetical protein LOC128876	515										ovary(2)	2			BRCA - Breast invasive adenocarcinoma(18;0.00252)			TCGGGCTCTGGGGAAGGGGAC	0.632													18	30	---	---	---	---	PASS
GDF5	8200	broad.mit.edu	37	20	34025560	34025560	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:34025560C>T	uc002xck.1	-	1	468	c.149G>A	c.(148-150)AGG>AAG	p.R50K	GDF5_uc010gfc.1_Missense_Mutation_p.R50K|GDF5_uc010zvc.1_Missense_Mutation_p.R50K	NM_000557	NP_000548	P43026	GDF5_HUMAN	growth differentiation factor 5 preproprotein	50					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)			CAGGGGGGGCCTCTCCTTGGC	0.652													8	8	---	---	---	---	PASS
CEP250	11190	broad.mit.edu	37	20	34092844	34092844	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:34092844C>T	uc002xcm.2	+						CEP250_uc010zve.1_Intron	NM_007186	NP_009117	Q9BV73	CP250_HUMAN	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)			GTAAGTCACTCCATGGGGAGT	0.607													4	10	---	---	---	---	PASS
CPNE1	8904	broad.mit.edu	37	20	34219078	34219078	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:34219078G>A	uc002xdf.2	-	12	1182	c.819C>T	c.(817-819)TCC>TCT	p.S273S	CPNE1_uc002xdc.2_5'UTR|CPNE1_uc010zvj.1_Silent_p.S278S|CPNE1_uc002xde.2_Silent_p.S249S|CPNE1_uc002xdg.2_Silent_p.S273S|CPNE1_uc010gfi.2_RNA|CPNE1_uc010gfj.2_RNA|CPNE1_uc002xdh.2_Silent_p.S273S|CPNE1_uc002xdi.2_Silent_p.S273S|CPNE1_uc002xdj.2_Silent_p.S273S|CPNE1_uc002xdk.2_Silent_p.S273S|CPNE1_uc002xdl.2_Silent_p.S273S|CPNE1_uc002xdm.2_Silent_p.S273S|CPNE1_uc010gfk.1_Silent_p.S273S	NM_152931	NP_690908	Q99829	CPNE1_HUMAN	copine I isoform a	273					lipid metabolic process|vesicle-mediated transport		calcium-dependent phospholipid binding|phosphatidylserine binding|transporter activity			upper_aerodigestive_tract(1)	1	Lung NSC(9;0.0053)|all_lung(11;0.00785)		BRCA - Breast invasive adenocarcinoma(18;0.00953)			AGTCCAGAAAGGAGTACTCTG	0.502													85	132	---	---	---	---	PASS
C20orf152	140894	broad.mit.edu	37	20	34575311	34575311	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:34575311C>T	uc002xes.1	+						C20orf152_uc002xer.1_Intron|C20orf152_uc010gfp.1_Intron			Q96M20	CT152_HUMAN	SubName: Full=C20orf152 protein;												0	Breast(12;0.00631)					CAGGCTCTTCCCACAGGAAGA	0.517													18	33	---	---	---	---	PASS
DLGAP4	22839	broad.mit.edu	37	20	35060414	35060414	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:35060414C>T	uc002xff.2	+	3	729	c.294C>T	c.(292-294)AAC>AAT	p.N98N	DLGAP4_uc010zvp.1_Silent_p.N98N	NM_014902	NP_055717	Q9Y2H0	DLGP4_HUMAN	disks large-associated protein 4 isoform a	98					cell-cell signaling	membrane	protein binding			skin(2)|ovary(1)	3	Breast(12;0.0192)	Myeloproliferative disorder(115;0.00878)				CCAAGATCAACCGGCTGCCCG	0.642													9	20	---	---	---	---	PASS
C20orf117	140710	broad.mit.edu	37	20	35437024	35437024	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:35437024G>A	uc002xgd.1	-	8	2319	c.1992C>T	c.(1990-1992)TCC>TCT	p.S664S	C20orf117_uc002xge.1_RNA	NM_199181	NP_954650	O94964	K0889_HUMAN	hypothetical protein LOC140710 isoform 2	664											0		Myeloproliferative disorder(115;0.00874)				TGAATTGCTGGGACTCCTGCA	0.582											OREG0025909	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	7	12	---	---	---	---	PASS
C20orf118	140711	broad.mit.edu	37	20	35507439	35507439	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:35507439C>T	uc002xgg.1	+							NM_080628	NP_542195	A0PJX2	CT118_HUMAN	hypothetical protein LOC140711												0		Myeloproliferative disorder(115;0.00874)				CAACCCTGTCCCCAGCTCAGC	0.597													25	41	---	---	---	---	PASS
KIAA1755	85449	broad.mit.edu	37	20	36856635	36856635	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:36856635C>G	uc002xhy.1	-	6	2151	c.1879G>C	c.(1879-1881)GAT>CAT	p.D627H	KIAA1755_uc002xhz.1_Missense_Mutation_p.D627H	NM_001029864	NP_001025035	Q5JYT7	K1755_HUMAN	hypothetical protein LOC85449	627										ovary(4)|pancreas(1)	5		Myeloproliferative disorder(115;0.00874)				TTGGCTTTATCTTCAGGCCTG	0.617													8	6	---	---	---	---	PASS
RALGAPB	57148	broad.mit.edu	37	20	37121775	37121775	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:37121775G>A	uc002xiw.2	+	3	646	c.389G>A	c.(388-390)AGA>AAA	p.R130K	RALGAPB_uc010zvz.1_Missense_Mutation_p.R130K|RALGAPB_uc002xix.2_Missense_Mutation_p.R130K|RALGAPB_uc002xiy.1_Missense_Mutation_p.R130K|RALGAPB_uc002xiz.2_5'UTR	NM_020336	NP_065069	Q86X10	RLGPB_HUMAN	Ral GTPase activating protein, beta subunit	130					activation of Ral GTPase activity	intracellular	protein heterodimerization activity|Ral GTPase activator activity			pancreas(1)|skin(1)	2						TTTGTACCAAGGTAAGCTATA	0.338													7	21	---	---	---	---	PASS
PPP1R16B	26051	broad.mit.edu	37	20	37547313	37547313	+	3'UTR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:37547313C>T	uc002xje.2	+	11					PPP1R16B_uc010ggc.2_3'UTR	NM_015568	NP_056383	Q96T49	PP16B_HUMAN	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)				CTCCTAGTCTCCGTGTGATGG	0.612													6	22	---	---	---	---	PASS
TOP1	7150	broad.mit.edu	37	20	39706282	39706282	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:39706282G>A	uc002xjl.2	+						TOP1_uc010gge.1_Intron	NM_003286	NP_003277	P11387	TOP1_HUMAN	DNA topoisomerase I						DNA topological change|interspecies interaction between organisms|phosphorylation|programmed cell death|response to drug	chromosome|nucleolus|nucleoplasm	ATP binding|chromatin DNA binding|DNA topoisomerase (ATP-hydrolyzing) activity|DNA topoisomerase type I activity|protein binding			breast(3)|ovary(2)|central_nervous_system(1)|kidney(1)	7		Myeloproliferative disorder(115;0.00878)			Irinotecan(DB00762)|Lucanthone(DB04967)|Topotecan(DB01030)	CTCTAGGTAAGACTTTGCTGC	0.483			T	NUP98	AML*								26	44	---	---	---	---	PASS
CHD6	84181	broad.mit.edu	37	20	40040911	40040911	+	Intron	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:40040911G>T	uc002xka.1	-						CHD6_uc002xjz.1_Intron	NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	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)				ATTCTAGGATGAAAACGGAGA	0.433													15	37	---	---	---	---	PASS
CHD6	84181	broad.mit.edu	37	20	40052232	40052232	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:40052232G>A	uc002xka.1	-	30	4633	c.4455C>T	c.(4453-4455)TCC>TCT	p.S1485S		NM_032221	NP_115597	Q8TD26	CHD6_HUMAN	chromodomain helicase DNA binding protein 6	1485					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)				TGTCCAAACGGGAAATGATGC	0.448													72	137	---	---	---	---	PASS
PTPRT	11122	broad.mit.edu	37	20	41419926	41419926	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:41419926C>T	uc002xkg.2	-	3	579	c.395G>A	c.(394-396)GGG>GAG	p.G132E	PTPRT_uc010ggj.2_Missense_Mutation_p.G132E	NM_007050	NP_008981	O14522	PTPRT_HUMAN	protein tyrosine phosphatase, receptor type, T	132	Extracellular (Potential).|MAM.				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)				CACAGGGTTCCCTTGGGGGCC	0.572													39	92	---	---	---	---	PASS
GDAP1L1	78997	broad.mit.edu	37	20	42885898	42885898	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:42885898G>A	uc002xlq.2	+	2	353	c.286G>A	c.(286-288)GAG>AAG	p.E96K	GDAP1L1_uc002xlp.1_Missense_Mutation_p.E96K|GDAP1L1_uc010zwl.1_Missense_Mutation_p.E96K|GDAP1L1_uc010zwm.1_Missense_Mutation_p.E96K|GDAP1L1_uc010zwn.1_Intron	NM_024034	NP_076939	Q96MZ0	GD1L1_HUMAN	ganglioside-induced differentiation-associated	96	GST N-terminal.									large_intestine(1)	1		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			CAACCTGGGCGAGGAGGTGCC	0.612													11	12	---	---	---	---	PASS
GDAP1L1	78997	broad.mit.edu	37	20	42907844	42907844	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:42907844G>A	uc002xlq.2	+	6	1075	c.1008G>A	c.(1006-1008)AGG>AGA	p.R336R	GDAP1L1_uc010zwl.1_Silent_p.R355R|GDAP1L1_uc010zwm.1_Silent_p.R278R|GDAP1L1_uc010zwn.1_Silent_p.R144R	NM_024034	NP_076939	Q96MZ0	GD1L1_HUMAN	ganglioside-induced differentiation-associated	336	GST C-terminal.									large_intestine(1)	1		Myeloproliferative disorder(115;0.0122)	COAD - Colon adenocarcinoma(18;0.00189)			TGGTCAAGAGGAAACCCCCAT	0.577													31	66	---	---	---	---	PASS
SEMG1	6406	broad.mit.edu	37	20	43836056	43836056	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:43836056C>T	uc002xni.2	+	2	175	c.118C>T	c.(118-120)CCA>TCA	p.P40S	SEMG1_uc002xnj.2_Missense_Mutation_p.P40S|SEMG2_uc010ggz.2_Intron|SEMG1_uc002xnh.2_Missense_Mutation_p.P40S	NM_003007	NP_002998	P04279	SEMG1_HUMAN	semenogelin I preproprotein	40					insemination|sexual reproduction	extracellular space|stored secretory granule	structural molecule activity			skin(2)	2		Myeloproliferative disorder(115;0.0122)				TTCCCAATTTCCACACGGACA	0.393													34	85	---	---	---	---	PASS
WFDC11	259239	broad.mit.edu	37	20	44277967	44277967	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:44277967C>T	uc002xpa.2	-	4	367	c.172G>A	c.(172-174)GCC>ACC	p.A58T		NM_147197	NP_671730	Q8NEX6	WFD11_HUMAN	WAP four-disulfide core domain 11 precursor	58						extracellular region					0		Myeloproliferative disorder(115;0.0122)				CATCTAAAGGCTTTAGAACAC	0.398													40	73	---	---	---	---	PASS
ACOT8	10005	broad.mit.edu	37	20	44472967	44472967	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:44472967G>A	uc002xqa.1	-	4	662	c.581C>T	c.(580-582)CCC>CTC	p.P194L	ACOT8_uc010zxe.1_Missense_Mutation_p.P194L|ACOT8_uc002xqc.1_Missense_Mutation_p.P141L|ACOT8_uc010zxf.1_Missense_Mutation_p.P74L	NM_005469	NP_005460	O14734	ACOT8_HUMAN	peroxisomal acyl-CoA thioesterase 1 isoform a	194					bile acid biosynthetic process|fatty acid beta-oxidation using acyl-CoA oxidase|interspecies interaction between organisms|peroxisome organization	peroxisomal matrix	acetyl-CoA hydrolase activity|acyl-CoA thioesterase activity|carboxylesterase activity|choloyl-CoA hydrolase activity|protein binding			skin(1)	1		Myeloproliferative disorder(115;0.0122)				CTGGCTCAGGGGGGATGGGTT	0.547													9	30	---	---	---	---	PASS
ZSWIM3	140831	broad.mit.edu	37	20	44506190	44506190	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:44506190G>A	uc002xqd.2	+	2	1196	c.993G>A	c.(991-993)ATG>ATA	p.M331I	ZSWIM3_uc010zxg.1_Missense_Mutation_p.M325I	NM_080752	NP_542790	Q96MP5	ZSWM3_HUMAN	zinc finger, SWIM domain containing 3	331							zinc ion binding			ovary(2)	2		Myeloproliferative disorder(115;0.0122)				AAAGGCTCATGAAGGAAGCCC	0.512													16	45	---	---	---	---	PASS
SLC12A5	57468	broad.mit.edu	37	20	44685209	44685209	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:44685209G>A	uc010zxl.1	+						SLC12A5_uc002xrb.2_Intron	NM_001134771	NP_001128243	Q9H2X9	S12A5_HUMAN	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)	AAGCCGTACGGGCCTGGGGGC	0.597													9	18	---	---	---	---	PASS
ZNF334	55713	broad.mit.edu	37	20	45133369	45133369	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:45133369G>A	uc002xsc.2	-	3	216	c.32C>T	c.(31-33)TCA>TTA	p.S11L	ZNF334_uc002xsa.2_Silent_p.F16F|ZNF334_uc002xsb.2_5'UTR|ZNF334_uc002xsd.2_5'UTR|ZNF334_uc010ghl.2_Missense_Mutation_p.S10L	NM_018102	NP_060572	Q9HCZ1	ZN334_HUMAN	zinc finger protein 334 isoform a	11	KRAB.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|pancreas(1)	2		Myeloproliferative disorder(115;0.0122)				GTCCTGGAATGAAACTGGTAT	0.443													29	45	---	---	---	---	PASS
EYA2	2139	broad.mit.edu	37	20	45633653	45633653	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:45633653G>A	uc002xsm.2	+	4	602	c.228G>A	c.(226-228)GCG>GCA	p.A76A	EYA2_uc010ghp.2_Silent_p.A76A|EYA2_uc002xsn.2_Silent_p.A81A|EYA2_uc002xso.2_Silent_p.A76A|EYA2_uc002xsp.2_Silent_p.A76A|EYA2_uc002xsq.2_Silent_p.A76A	NM_005244	NP_005235	O00167	EYA2_HUMAN	eyes absent 2 isoform a	76					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)				AGTACAGTGCGGGGATCCAGC	0.552													19	30	---	---	---	---	PASS
CSE1L	1434	broad.mit.edu	37	20	47710733	47710733	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:47710733G>A	uc002xty.2	+	23	2638	c.2504G>A	c.(2503-2505)GGA>GAA	p.G835E	CSE1L_uc010zyg.1_Missense_Mutation_p.G618E|CSE1L_uc010ghx.2_Missense_Mutation_p.G779E|CSE1L_uc010ghy.2_Missense_Mutation_p.G456E|CSE1L_uc010zyh.1_Missense_Mutation_p.G484E	NM_001316	NP_001307	P55060	XPO2_HUMAN	CSE1 chromosome segregation 1-like protein	835					apoptosis|cell proliferation|intracellular protein transport	cytoplasm|nucleus	importin-alpha export receptor activity			large_intestine(1)|skin(1)	2			BRCA - Breast invasive adenocarcinoma(12;0.000491)|Colorectal(8;0.198)			AAGGTATCTGGAAATGTAGAG	0.318													18	42	---	---	---	---	PASS
SLC9A8	23315	broad.mit.edu	37	20	48497523	48497523	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:48497523C>T	uc002xuv.1	+	13	1431	c.1221C>T	c.(1219-1221)TTC>TTT	p.F407F	SLC9A8_uc010zym.1_Silent_p.F107F|SLC9A8_uc010gic.2_Silent_p.F107F|SLC9A8_uc010gid.2_Silent_p.F31F	NM_015266	NP_056081	Q9Y2E8	SL9A8_HUMAN	sodium/hydrogen exchanger 8	407						Golgi membrane|integral to membrane	sodium:hydrogen antiporter activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(9;3.91e-07)			TGAATTTCTTCCGGGATCATA	0.408													20	38	---	---	---	---	PASS
SLC9A8	23315	broad.mit.edu	37	20	48497524	48497524	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:48497524C>T	uc002xuv.1	+	13	1432	c.1222C>T	c.(1222-1224)CGG>TGG	p.R408W	SLC9A8_uc010zym.1_Missense_Mutation_p.R108W|SLC9A8_uc010gic.2_Missense_Mutation_p.R108W|SLC9A8_uc010gid.2_Missense_Mutation_p.R32W	NM_015266	NP_056081	Q9Y2E8	SL9A8_HUMAN	sodium/hydrogen exchanger 8	408						Golgi membrane|integral to membrane	sodium:hydrogen antiporter activity			ovary(1)	1			BRCA - Breast invasive adenocarcinoma(9;3.91e-07)			GAATTTCTTCCGGGATCATAA	0.413													19	38	---	---	---	---	PASS
TMEM189	387521	broad.mit.edu	37	20	48741588	48741588	+	3'UTR	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:48741588G>A	uc002xvg.2	-	6					TMEM189-UBE2V1_uc002xvf.2_Intron|TMEM189_uc010zyq.1_RNA|TMEM189_uc010gif.2_3'UTR|TMEM189_uc010zyp.1_3'UTR	NM_199129	NP_954580	A5PLL7	TM189_HUMAN	transmembrane protein 189 isoform 1							endoplasmic reticulum membrane|integral to membrane					0			BRCA - Breast invasive adenocarcinoma(9;3.02e-07)			TAGCAGGCTCGGAGAAGTTAT	0.582													18	28	---	---	---	---	PASS
FAM65C	140876	broad.mit.edu	37	20	49236648	49236648	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:49236648G>A	uc002xvm.2	-	3	450	c.132C>T	c.(130-132)TCC>TCT	p.S44S	FAM65C_uc010zyt.1_Silent_p.S48S|FAM65C_uc010zyu.1_RNA|FAM65C_uc002xvn.1_Silent_p.S44S	NM_080829	NP_543019	Q96MK2	FA65C_HUMAN	hypothetical protein LOC140876	44										ovary(2)	2						GCGATCTCACGGAGTTCCTGT	0.537													24	60	---	---	---	---	PASS
MOCS3	27304	broad.mit.edu	37	20	49576168	49576168	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:49576168C>T	uc002xvy.1	+	1	806	c.789C>T	c.(787-789)ATC>ATT	p.I263I	DPM1_uc002xvw.1_5'Flank|DPM1_uc002xvx.1_5'Flank	NM_014484	NP_055299	O95396	MOCS3_HUMAN	molybdenum cofactor synthesis 3	263					enzyme active site formation via L-cysteine persulfide|Mo-molybdopterin cofactor biosynthetic process|tRNA thio-modification|tRNA wobble uridine modification|water-soluble vitamin metabolic process	cytosol	ATP binding|metal ion binding|nucleotidyltransferase activity|protein binding|thiosulfate sulfurtransferase activity|URM1 activating enzyme activity			skin(2)|ovary(1)	3						TGCTGAAAATCGCTGCGGGTC	0.642													15	30	---	---	---	---	PASS
SALL4	57167	broad.mit.edu	37	20	50406824	50406824	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:50406824G>A	uc002xwh.3	-	2	2299	c.2198C>T	c.(2197-2199)CCA>CTA	p.P733L	SALL4_uc010gii.2_Intron|SALL4_uc002xwi.3_Intron	NM_020436	NP_065169	Q9UJQ4	SALL4_HUMAN	sal-like 4	733					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						CACTTTCCCTGGGGCATCTAA	0.607													9	18	---	---	---	---	PASS
SALL4	57167	broad.mit.edu	37	20	50406825	50406825	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:50406825G>A	uc002xwh.3	-	2	2298	c.2197C>T	c.(2197-2199)CCA>TCA	p.P733S	SALL4_uc010gii.2_Intron|SALL4_uc002xwi.3_Intron	NM_020436	NP_065169	Q9UJQ4	SALL4_HUMAN	sal-like 4	733					transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(2)	2						ACTTTCCCTGGGGCATCTAAG	0.607													9	17	---	---	---	---	PASS
CBLN4	140689	broad.mit.edu	37	20	54573819	54573819	+	Intron	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:54573819A>T	uc002xxa.2	-							NM_080617	NP_542184	Q9NTU7	CBLN4_HUMAN	cerebellin 4 precursor							cell junction|extracellular region|synapse				ovary(3)|pancreas(1)	4			Colorectal(105;0.202)			ACCTAGAAGAAGAAAAATAAT	0.358													15	21	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	20	56063462	56063462	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:56063462C>T	uc010zzl.1	-	1	622	c.622G>A	c.(622-624)GAT>AAT	p.D208N		NM_001008735	NP_001008735			high-mobility group box 1-like 1																		tcatcatcatcatcttcttca	0.194													16	22	---	---	---	---	PASS
ZNF831	128611	broad.mit.edu	37	20	57767367	57767367	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:57767367G>A	uc002yan.2	+	1	1293	c.1293G>A	c.(1291-1293)AAG>AAA	p.K431K		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	431						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					GGCCCCGGAAGACCGGGCTGT	0.647													7	6	---	---	---	---	PASS
ZNF831	128611	broad.mit.edu	37	20	57768720	57768720	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:57768720C>T	uc002yan.2	+	1	2646	c.2646C>T	c.(2644-2646)TCC>TCT	p.S882S		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	882						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					CTCTGGAGTCCTCTGGAGCCT	0.657													5	10	---	---	---	---	PASS
ZNF831	128611	broad.mit.edu	37	20	57769121	57769121	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:57769121G>A	uc002yan.2	+	1	3047	c.3047G>A	c.(3046-3048)GGG>GAG	p.G1016E		NM_178457	NP_848552	Q5JPB2	ZN831_HUMAN	zinc finger protein 831	1016						intracellular	nucleic acid binding|zinc ion binding			skin(13)|ovary(1)	14	all_lung(29;0.0085)					CCACAGGATGGGAGAAAAGGG	0.672													10	10	---	---	---	---	PASS
SYCP2	10388	broad.mit.edu	37	20	58475292	58475292	+	Silent	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:58475292A>G	uc002yaz.2	-	17	1444	c.1305T>C	c.(1303-1305)GTT>GTC	p.V435V	SYCP2_uc010gju.1_Silent_p.V336V	NM_014258	NP_055073	Q9BX26	SYCP2_HUMAN	synaptonemal complex protein 2	435					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)			CCTTTAAACTAACGAGCTCTT	0.343													15	29	---	---	---	---	PASS
CDH26	60437	broad.mit.edu	37	20	58560196	58560196	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:58560196G>A	uc002ybe.2	+						CDH26_uc010zzy.1_Intron	NM_177980	NP_817089	Q8IXH8	CAD26_HUMAN	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)			TGAGGCTCCTGGGCCGCCCCA	0.478													12	7	---	---	---	---	PASS
CDH4	1002	broad.mit.edu	37	20	60470012	60470012	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:60470012G>A	uc002ybn.1	+	8	1111	c.1097G>A	c.(1096-1098)GGA>GAA	p.G366E	CDH4_uc002ybp.1_Missense_Mutation_p.G292E	NM_001794	NP_001785	P55283	CADH4_HUMAN	cadherin 4, type 1 preproprotein	366	Extracellular (Potential).|Cadherin 2.				adherens junction organization|cell junction assembly		calcium ion binding			lung(3)|ovary(2)|skin(1)	6			BRCA - Breast invasive adenocarcinoma(19;2.36e-08)			GATATGGAAGGAAATCTCAAC	0.473													46	79	---	---	---	---	PASS
CDH4	1002	broad.mit.edu	37	20	60470115	60470115	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:60470115G>A	uc002ybn.1	+						CDH4_uc002ybp.1_Intron	NM_001794	NP_001785	P55283	CADH4_HUMAN	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)			TGAGTCCCTCGAAGCTGCCCA	0.602													42	73	---	---	---	---	PASS
C20orf166	128826	broad.mit.edu	37	20	61167762	61167762	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:61167762C>T	uc011aaj.1	+	4	1011	c.232C>T	c.(232-234)CCA>TCA	p.P78S		NM_178463	NP_848558	Q9H1L0	CT166_HUMAN	hypothetical protein LOC128826	78											0	Breast(26;1.04e-08)		BRCA - Breast invasive adenocarcinoma(19;7.17e-06)			CCACAGTGCTCCAGTGTGTGA	0.522													11	32	---	---	---	---	PASS
C20orf20	55257	broad.mit.edu	37	20	61430920	61430920	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:61430920C>T	uc002ydi.2	+	5	611	c.540C>T	c.(538-540)AGC>AGT	p.S180S		NM_018270	NP_060740	Q9NV56	MRGBP_HUMAN	MRG-binding protein	180					chromatin modification|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	H4/H2A histone acetyltransferase complex					0	Breast(26;3.65e-08)					GGAAGCGCAGCCGGGTCACCG	0.587													27	68	---	---	---	---	PASS
C20orf20	55257	broad.mit.edu	37	20	61430921	61430921	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:61430921C>T	uc002ydi.2	+	5	612	c.541C>T	c.(541-543)CGG>TGG	p.R181W		NM_018270	NP_060740	Q9NV56	MRGBP_HUMAN	MRG-binding protein	181					chromatin modification|regulation of growth|regulation of transcription, DNA-dependent|transcription, DNA-dependent	H4/H2A histone acetyltransferase complex					0	Breast(26;3.65e-08)					GAAGCGCAGCCGGGTCACCGA	0.582													27	68	---	---	---	---	PASS
COL9A3	1299	broad.mit.edu	37	20	61460130	61460130	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:61460130G>A	uc002ydm.2	+	18	918	c.915G>A	c.(913-915)AAG>AAA	p.K305K		NM_001853	NP_001844	Q14050	CO9A3_HUMAN	alpha 3 type IX collagen precursor	305	Triple-helical region 3 (COL3).				axon guidance	collagen type IX					0	Breast(26;5.68e-08)					TGCCGGGCAAGGACGGCCAGA	0.697													4	12	---	---	---	---	PASS
COL9A3	1299	broad.mit.edu	37	20	61467684	61467684	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:61467684C>T	uc002ydm.2	+	28	1550	c.1547C>T	c.(1546-1548)CCG>CTG	p.P516L	COL9A3_uc002ydn.2_5'Flank	NM_001853	NP_001844	Q14050	CO9A3_HUMAN	alpha 3 type IX collagen precursor	516	Triple-helical region 3 (COL3).				axon guidance	collagen type IX					0	Breast(26;5.68e-08)					CCGGGAGTTCCGGTACGTCGC	0.627													10	26	---	---	---	---	PASS
CHRNA4	1137	broad.mit.edu	37	20	61981026	61981026	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:61981026C>T	uc002yes.2	-	5	1915	c.1737G>A	c.(1735-1737)AAG>AAA	p.K579K	CHRNA4_uc002yet.1_Silent_p.K403K|CHRNA4_uc011aaw.1_RNA|CHRNA4_uc010gke.1_Silent_p.K508K|CHRNA4_uc002yev.1_Silent_p.K403K|CHRNA4_uc010gkf.1_Silent_p.K403K	NM_000744	NP_000735	P43681	ACHA4_HUMAN	cholinergic receptor, nicotinic, alpha 4 subunit	579	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)	TGTCTTCGGCCTTCAGGTGGT	0.657													14	26	---	---	---	---	PASS
CHRNA4	1137	broad.mit.edu	37	20	61982311	61982311	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:61982311C>A	uc002yes.2	-	5	630	c.452G>T	c.(451-453)TGG>TTG	p.W151L	CHRNA4_uc002yet.1_5'UTR|CHRNA4_uc011aaw.1_RNA|CHRNA4_uc010gke.1_Missense_Mutation_p.W80L|CHRNA4_uc002yev.1_5'UTR|CHRNA4_uc010gkf.1_5'UTR	NM_000744	NP_000735	P43681	ACHA4_HUMAN	cholinergic receptor, nicotinic, alpha 4 subunit	151	Extracellular (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)	CGGGGGAGTCCACTGCACCCG	0.602													14	31	---	---	---	---	PASS
KCNQ2	3785	broad.mit.edu	37	20	62070082	62070082	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62070082C>T	uc002yey.1	-						KCNQ2_uc002yez.1_Intron|KCNQ2_uc002yfa.1_Intron|KCNQ2_uc002yfb.1_Intron|KCNQ2_uc011aax.1_Intron|KCNQ2_uc002yfc.1_Intron	NM_172107	NP_742105	O43526	KCNQ2_HUMAN	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)	CCCTGCAATTCATCAGGGTCA	0.607													10	27	---	---	---	---	PASS
SRMS	6725	broad.mit.edu	37	20	62172782	62172782	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62172782C>T	uc002yfi.1	-							NM_080823	NP_543013	Q9H3Y6	SRMS_HUMAN	src-related kinase lacking C-terminal regulatory								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)			GGCCCAGAGCCTCCGCTGACC	0.711													3	17	---	---	---	---	PASS
PRIC285	85441	broad.mit.edu	37	20	62198494	62198494	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62198494G>A	uc002yfm.2	-	7	3109	c.2217C>T	c.(2215-2217)TTC>TTT	p.F739F	PRIC285_uc002yfl.1_Silent_p.F170F	NM_001037335	NP_001032412	Q9BYK8	PR285_HUMAN	PPAR-alpha interacting complex protein 285	739					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)			AGTTCTCGTGGAAGACCAGGC	0.672													17	46	---	---	---	---	PASS
RTEL1	51750	broad.mit.edu	37	20	62319071	62319071	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62319071C>T	uc002yfu.1	+	17	1772	c.1429C>T	c.(1429-1431)CTT>TTT	p.L477F	RTEL1_uc011abc.1_RNA|RTEL1_uc002yft.1_Missense_Mutation_p.L477F|RTEL1_uc011abd.1_Missense_Mutation_p.L501F|RTEL1_uc011abe.1_Missense_Mutation_p.L254F|RTEL1_uc002yfw.2_RNA|RTEL1_uc002yfx.1_5'Flank	NM_016434	NP_057518	Q9NZ71	RTEL1_HUMAN	regulator of telomere elongation helicase 1	477					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)			CTCCCTCATCCTTACCAGCGG	0.677													4	5	---	---	---	---	PASS
TPD52L2	7165	broad.mit.edu	37	20	62520563	62520563	+	Missense_Mutation	SNP	C	T	T	rs150777439		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62520563C>T	uc002yhc.2	+	6	626	c.497C>T	c.(496-498)TCG>TTG	p.S166L	TPD52L2_uc002ygy.2_Missense_Mutation_p.S189L|TPD52L2_uc002ygz.2_Missense_Mutation_p.S180L|TPD52L2_uc002yha.2_Missense_Mutation_p.S169L|TPD52L2_uc002yhb.2_Missense_Mutation_p.S160L|TPD52L2_uc002yhd.2_Missense_Mutation_p.S146L|TPD52L2_uc011abk.1_Missense_Mutation_p.S117L|TPD52L2_uc011abl.1_Missense_Mutation_p.S123L|TPD52L2_uc002yhe.2_Missense_Mutation_p.S65L	NM_003288	NP_003279	O43399	TPD54_HUMAN	tumor protein D52-like 2 isoform e	166					regulation of cell proliferation	perinuclear region of cytoplasm	protein binding|protein homodimerization activity	p.S189L(1)		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)					ACCTTCAAGTCGTTTGAGGAC	0.483													5	22	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	21	10862616	10862616	+	IGR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:10862616C>T								None (None upstream) : TPTE (44127 downstream)																							AGCACAGCTCCTTACCATGGA	0.493													35	321	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	21	10863054	10863054	+	IGR	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:10863054G>A								None (None upstream) : TPTE (43689 downstream)																							TACTGTGTGAGAGACACAATG	0.498													86	395	---	---	---	---	PASS
TPTE	7179	broad.mit.edu	37	21	10908843	10908843	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:10908843G>A	uc002yip.1	-	23	1870	c.1502C>T	c.(1501-1503)TCT>TTT	p.S501F	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.S483F|TPTE_uc002yir.1_Missense_Mutation_p.S463F|TPTE_uc010gkv.1_Missense_Mutation_p.S363F	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	501	C2 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)		TTCAATAAAAGATGTGTGCAA	0.299													8	47	---	---	---	---	PASS
TPTE	7179	broad.mit.edu	37	21	10914364	10914364	+	Missense_Mutation	SNP	G	A	A	rs147105244		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:10914364G>A	uc002yip.1	-	21	1723	c.1355C>T	c.(1354-1356)TCG>TTG	p.S452L	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.S434L|TPTE_uc002yir.1_Missense_Mutation_p.S414L|TPTE_uc010gkv.1_Missense_Mutation_p.S314L	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	452	C2 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)		TTCTCTTACCGAACATTTTCC	0.323													6	57	---	---	---	---	PASS
TPTE	7179	broad.mit.edu	37	21	10920086	10920086	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:10920086G>T	uc002yip.1	-	19	1536	c.1168C>A	c.(1168-1170)CAG>AAG	p.Q390K	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.Q372K|TPTE_uc002yir.1_Missense_Mutation_p.Q352K|TPTE_uc010gkv.1_Missense_Mutation_p.Q252K	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	390	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)		AAACTTACCTGAGAAGGAGTT	0.378													11	61	---	---	---	---	PASS
TPTE	7179	broad.mit.edu	37	21	10941939	10941939	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:10941939C>T	uc002yip.1	-	14	1132	c.764G>A	c.(763-765)GGA>GAA	p.G255E	TPTE_uc002yis.1_RNA|TPTE_uc002yiq.1_Missense_Mutation_p.G237E|TPTE_uc002yir.1_Missense_Mutation_p.G217E|TPTE_uc010gkv.1_Missense_Mutation_p.G117E	NM_199261	NP_954870	P56180	TPTE_HUMAN	transmembrane phosphatase with tensin homology	255	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)		AGACTGCCTTCCAGAAGATGG	0.289													14	182	---	---	---	---	PASS
LIPI	149998	broad.mit.edu	37	21	15538721	15538721	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:15538721C>T	uc002yjm.2	-	5	768	c.758G>A	c.(757-759)GGA>GAA	p.G253E	LIPI_uc010gkw.1_Intron	NM_198996	NP_945347	Q6XZB0	LIPI_HUMAN	lipase, member I	232					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)		TTGTTTATTTCCTCCATTTGG	0.343													18	47	---	---	---	---	PASS
NRIP1	8204	broad.mit.edu	37	21	16337376	16337376	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:16337376G>A	uc002yjx.2	-	4	3736	c.3138C>T	c.(3136-3138)ATC>ATT	p.I1046I		NM_003489	NP_003480	P48552	NRIP1_HUMAN	nuclear receptor interacting protein 1	1046					androgen receptor signaling pathway|negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent		androgen receptor binding|estrogen receptor binding|glucocorticoid receptor binding|transcription coactivator activity|transcription corepressor activity				0				Epithelial(23;1.19e-05)|all cancers(11;4.64e-05)|COAD - Colon adenocarcinoma(22;0.000232)|Colorectal(24;0.0006)|OV - Ovarian serous cystadenocarcinoma(11;0.00418)|Lung(58;0.199)|LUSC - Lung squamous cell carcinoma(23;0.24)		CCGCATCAGTGATAACCCACT	0.443													9	34	---	---	---	---	PASS
USP25	29761	broad.mit.edu	37	21	17163870	17163870	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:17163870C>T	uc002yjy.1	+	5	659	c.442C>T	c.(442-444)CCT>TCT	p.P148S	USP25_uc011aby.1_Missense_Mutation_p.P148S|USP25_uc002yjz.1_Missense_Mutation_p.P148S|USP25_uc010gla.1_Missense_Mutation_p.P148S	NM_013396	NP_037528	Q9UHP3	UBP25_HUMAN	ubiquitin specific peptidase 25	148					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)		GAAGAGGACACCTACAGAAGT	0.388													25	57	---	---	---	---	PASS
CHODL	140578	broad.mit.edu	37	21	19629007	19629007	+	Silent	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:19629007G>T	uc002ykv.2	+	2	652	c.261G>T	c.(259-261)CTG>CTT	p.L87L	CHODL_uc002ykr.2_Silent_p.L46L|CHODL_uc002yks.2_Silent_p.L46L|CHODL_uc002ykt.2_Silent_p.L46L|CHODL_uc002yku.2_Silent_p.L46L	NM_024944	NP_079220	Q9H9P2	CHODL_HUMAN	chondrolectin precursor	87	Extracellular (Potential).|C-type lectin.				muscle organ development	integral to membrane|perinuclear region of cytoplasm	sugar binding			upper_aerodigestive_tract(1)	1		all_epithelial(11;0.21)		Epithelial(23;0.000191)|all cancers(11;0.000827)|LUSC - Lung squamous cell carcinoma(23;0.00646)|Lung(58;0.0129)|OV - Ovarian serous cystadenocarcinoma(11;0.017)|COAD - Colon adenocarcinoma(22;0.03)|Colorectal(24;0.0917)		TGCAAAACCTGACAAAACCCG	0.507													26	62	---	---	---	---	PASS
TMPRSS15	5651	broad.mit.edu	37	21	19775824	19775824	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:19775824G>A	uc002ykw.2	-	1	147	c.116C>T	c.(115-117)TCC>TTC	p.S39F		NM_002772	NP_002763	P98073	ENTK_HUMAN	enterokinase precursor	39	Helical; Signal-anchor for type II membrane protein; (Potential).				proteolysis	brush border|integral to membrane	scavenger receptor activity|serine-type endopeptidase activity			ovary(5)|upper_aerodigestive_tract(1)|breast(1)|skin(1)	8						TGTCAGGCAGGATACTGCAAT	0.448													16	38	---	---	---	---	PASS
NCAM2	4685	broad.mit.edu	37	21	22658606	22658606	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:22658606G>A	uc002yld.1	+	4	604	c.355G>A	c.(355-357)GAA>AAA	p.E119K	NCAM2_uc011acb.1_Intron|NCAM2_uc011acc.1_Missense_Mutation_p.E144K	NM_004540	NP_004531	O15394	NCAM2_HUMAN	neural cell adhesion molecule 2 precursor	119	Ig-like C2-type 2.|Extracellular (Potential).				neuron cell-cell adhesion	integral to membrane|plasma membrane				ovary(4)	4		Lung NSC(9;0.195)		all cancers(11;0.00102)|OV - Ovarian serous cystadenocarcinoma(11;0.00121)|Epithelial(23;0.00147)|Colorectal(24;0.174)		CACTTTCAGAGAAGTGGTATC	0.343													7	9	---	---	---	---	PASS
KRTAP13-4	284827	broad.mit.edu	37	21	31802915	31802915	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:31802915G>A	uc011acw.1	+	1	322	c.322G>A	c.(322-324)GGA>AGA	p.G108R		NM_181600	NP_853631	Q3LI77	KR134_HUMAN	keratin associated protein 13-4	108						intermediate filament					0						GCTGGGAAATGGATCCAGTGG	0.532													8	15	---	---	---	---	PASS
KRTAP19-3	337970	broad.mit.edu	37	21	31864251	31864251	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:31864251C>T	uc002yog.1	-	1	25	c.25G>A	c.(25-27)GGA>AGA	p.G9R		NM_181609	NP_853640	Q7Z4W3	KR193_HUMAN	keratin associated protein 19-3	9						intermediate filament					0						CCCAGGCCTCCATAGTAGCTG	0.562													22	60	---	---	---	---	PASS
KRTAP6-3	337968	broad.mit.edu	37	21	31964882	31964882	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:31964882G>A	uc002yom.2	+	1	124	c.118G>A	c.(118-120)GGG>AGG	p.G40R		NM_181605	NP_853636			keratin associated protein 6-3												0						ctgtggctatgggtgctgtgg	0.124													17	21	---	---	---	---	PASS
KRTAP20-2	337976	broad.mit.edu	37	21	32007668	32007668	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:32007668G>A	uc011adg.1	+	1	86	c.86G>A	c.(85-87)GGC>GAC	p.G29D		NM_181616	NP_853647	Q3LI61	KR202_HUMAN	keratin associated protein 20-2	29						intermediate filament				central_nervous_system(1)	1						TGTGGTTATGGCCATGGCTAT	0.552													5	24	---	---	---	---	PASS
TIAM1	7074	broad.mit.edu	37	21	32638620	32638620	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:32638620G>A	uc002yow.1	-	5	1141	c.669C>T	c.(667-669)CTC>CTT	p.L223L	TIAM1_uc011adk.1_Silent_p.L223L|TIAM1_uc011adl.1_Silent_p.L223L|TIAM1_uc002yox.1_Intron	NM_003253	NP_003244	Q13009	TIAM1_HUMAN	T-cell lymphoma invasion and metastasis 1	223					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						GACAGGTGCTGAGCTGCCGCG	0.552													18	26	---	---	---	---	PASS
SFRS15	57466	broad.mit.edu	37	21	33074193	33074193	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:33074193G>A	uc002ypd.2	-	6	922	c.496C>T	c.(496-498)CCC>TCC	p.P166S	SFRS15_uc002ype.2_Missense_Mutation_p.P166S|SFRS15_uc010glu.2_Missense_Mutation_p.P151S|SFRS15_uc002ypf.1_5'UTR|SFRS15_uc002ypg.2_Missense_Mutation_p.P166S	NM_020706	NP_065757	O95104	SFR15_HUMAN	splicing factor, arginine/serine-rich 15 isoform	166						nucleus	nucleotide binding|RNA binding				0						GCTTGTGTGGGAGGTTCAGAA	0.453													9	50	---	---	---	---	PASS
HUNK	30811	broad.mit.edu	37	21	33371063	33371063	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:33371063G>A	uc002yph.2	+	11	2071	c.1711G>A	c.(1711-1713)GTA>ATA	p.V571I		NM_014586	NP_055401	P57058	HUNK_HUMAN	hormonally upregulated Neu-associated kinase	571					multicellular organismal development|signal transduction		ATP binding|protein serine/threonine kinase activity			stomach(1)|skin(1)	2						CGACGACCACGTAGAAGTGCT	0.612													14	23	---	---	---	---	PASS
SYNJ1	8867	broad.mit.edu	37	21	34053869	34053869	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:34053869G>A	uc002yqh.2	-	11	1407	c.1407C>T	c.(1405-1407)TCC>TCT	p.S469S	SYNJ1_uc011ads.1_Silent_p.S430S|SYNJ1_uc002yqf.2_Silent_p.S430S|SYNJ1_uc002yqg.2_Silent_p.S430S|SYNJ1_uc002yqi.2_Silent_p.S469S	NM_003895	NP_003886	O43426	SYNJ1_HUMAN	synaptojanin 1 isoform a	430	SAC.						inositol-polyphosphate 5-phosphatase activity|nucleotide binding|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|RNA binding			ovary(4)|skin(1)	5						CACCATTCACGGACCACATTG	0.398													18	59	---	---	---	---	PASS
SON	6651	broad.mit.edu	37	21	34924260	34924260	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:34924260C>T	uc002yse.1	+	3	2772	c.2723C>T	c.(2722-2724)TCA>TTA	p.S908L	SON_uc002ysb.1_Missense_Mutation_p.S908L|SON_uc002ysc.2_Missense_Mutation_p.S908L|SON_uc002ysd.2_Intron|SON_uc002ysf.1_Intron|SON_uc002ysg.2_5'Flank	NM_138927	NP_620305	P18583	SON_HUMAN	SON DNA-binding protein isoform F	908					anti-apoptosis|cytokinesis|mRNA processing|regulation of cell cycle|regulation of RNA splicing|RNA splicing|spindle pole body separation	nuclear speck	DNA binding|double-stranded RNA binding			ovary(4)|skin(2)	6						ATGTTGGGTTCAAAATCTCCT	0.473													8	24	---	---	---	---	PASS
ITSN1	6453	broad.mit.edu	37	21	35208892	35208892	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:35208892C>T	uc002yta.1	+	29	3885	c.3617C>T	c.(3616-3618)TCC>TTC	p.S1206F	DONSON_uc002ysn.1_Intron|ITSN1_uc002yth.3_RNA|ITSN1_uc002ysz.2_Missense_Mutation_p.S1130F|ITSN1_uc010gmg.2_Missense_Mutation_p.S1093F|ITSN1_uc010gmh.2_RNA|ITSN1_uc002ysw.2_Missense_Mutation_p.S1206F|ITSN1_uc010gmi.2_Missense_Mutation_p.S1169F|ITSN1_uc010gmj.2_Missense_Mutation_p.S1085F|ITSN1_uc002ysy.2_Missense_Mutation_p.S1201F|ITSN1_uc002ysx.2_Missense_Mutation_p.S1164F|ITSN1_uc002ytb.1_Missense_Mutation_p.S1201F|ITSN1_uc002ytd.2_RNA|ITSN1_uc010gmk.2_Missense_Mutation_p.S1098F|ITSN1_uc010gml.2_RNA|ITSN1_uc002ytj.2_Missense_Mutation_p.S1201F|ITSN1_uc010gmm.1_RNA|ITSN1_uc002yte.2_Missense_Mutation_p.S1069F|ITSN1_uc002yti.1_RNA	NM_003024	NP_003015	Q15811	ITSN1_HUMAN	intersectin 1 isoform ITSN-l	1206	SH3 5.				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 vesicle endocytosis	cell junction|coated pit|cytosol|lamellipodium|synapse|synaptosome	calcium ion binding|proline-rich region binding|protein complex scaffold|Rho guanyl-nucleotide exchange factor activity			ovary(3)|skin(1)	4						CTCTTCCCATCCAATTATGTG	0.532													28	52	---	---	---	---	PASS
ITSN1	6453	broad.mit.edu	37	21	35237447	35237447	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:35237447C>T	uc002yta.1	+						DONSON_uc002ysn.1_Intron|ITSN1_uc002ytb.1_Intron|ITSN1_uc002ytj.2_Intron|ITSN1_uc010gmm.1_Intron	NM_003024	NP_003015	Q15811	ITSN1_HUMAN	intersectin 1 isoform ITSN-l						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 vesicle endocytosis	cell junction|coated pit|cytosol|lamellipodium|synapse|synaptosome	calcium ion binding|proline-rich region binding|protein complex scaffold|Rho guanyl-nucleotide exchange factor activity			ovary(3)|skin(1)	4						TCCCGTGTTTCCGTGCAGAGC	0.562													10	14	---	---	---	---	PASS
SLC5A3	6526	broad.mit.edu	37	21	35468224	35468224	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:35468224C>T	uc002yto.2	+	2	1239	c.727C>T	c.(727-729)CCT>TCT	p.P243S	MRPS6_uc002ytp.2_Intron	NM_006933	NP_008864	P53794	SC5A3_HUMAN	solute carrier family 5 (inositol transporters),	243	Cytoplasmic (Potential).					integral to plasma membrane	myo-inositol:sodium symporter activity			ovary(2)	2						TAATGTCTCCCCTAAGAAAGA	0.448													17	67	---	---	---	---	PASS
SLC5A3	6526	broad.mit.edu	37	21	35468225	35468225	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:35468225C>T	uc002yto.2	+	2	1240	c.728C>T	c.(727-729)CCT>CTT	p.P243L	MRPS6_uc002ytp.2_Intron	NM_006933	NP_008864	P53794	SC5A3_HUMAN	solute carrier family 5 (inositol transporters),	243	Cytoplasmic (Potential).					integral to plasma membrane	myo-inositol:sodium symporter activity			ovary(2)	2						AATGTCTCCCCTAAGAAAGAA	0.448													17	67	---	---	---	---	PASS
CHAF1B	8208	broad.mit.edu	37	21	37788602	37788602	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:37788602C>T	uc002yvj.2	+	14	1756	c.1618C>T	c.(1618-1620)CCA>TCA	p.P540S		NM_005441	NP_005432	Q13112	CAF1B_HUMAN	chromatin assembly factor 1 subunit B	540					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|cytoplasm	chromatin binding|histone binding|unfolded protein binding			ovary(1)|skin(1)	2						GGGCAGTCCCCCAGAGCTAAA	0.527													8	15	---	---	---	---	PASS
CHAF1B	8208	broad.mit.edu	37	21	37788673	37788673	+	3'UTR	SNP	C	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:37788673C>G	uc002yvj.2	+	14						NM_005441	NP_005432	Q13112	CAF1B_HUMAN	chromatin assembly factor 1 subunit B						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|cytoplasm	chromatin binding|histone binding|unfolded protein binding			ovary(1)|skin(1)	2						GATGGGACCTCGGCTTCTGCT	0.607													4	12	---	---	---	---	PASS
DYRK1A	1859	broad.mit.edu	37	21	38858793	38858793	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:38858793G>A	uc002ywk.2	+	5	616	c.541G>A	c.(541-543)GAG>AAG	p.E181K	DYRK1A_uc002ywh.1_Missense_Mutation_p.E143K|DYRK1A_uc002ywi.2_Missense_Mutation_p.E181K|DYRK1A_uc002ywj.2_Missense_Mutation_p.E172K|DYRK1A_uc002ywl.2_Missense_Mutation_p.E181K|DYRK1A_uc002ywm.2_Missense_Mutation_p.E181K|DYRK1A_uc011aei.1_5'Flank	NM_001396	NP_001387	Q13627	DYR1A_HUMAN	dual-specificity tyrosine-(Y)-phosphorylation	181	Protein kinase.				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						TGATCGTGTGGAGCAAGAATG	0.313													16	35	---	---	---	---	PASS
KCNJ6	3763	broad.mit.edu	37	21	39086760	39086760	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:39086760C>T	uc011aej.1	-	3	753	c.700G>A	c.(700-702)GAG>AAG	p.E234K	KCNJ6_uc002ywo.2_Missense_Mutation_p.E234K	NM_002240	NP_002231	P48051	IRK6_HUMAN	potassium inwardly-rectifying channel J6	234	Cytoplasmic (By similarity).				synaptic transmission	Golgi apparatus|voltage-gated potassium channel complex	G-protein activated inward rectifier potassium channel activity|protein binding			skin(1)	1					Halothane(DB01159)	ATGGAAGCCTCCACAATGTGG	0.527													14	35	---	---	---	---	PASS
DSCR4	10281	broad.mit.edu	37	21	39492507	39492507	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:39492507G>A	uc002ywp.2	-						DSCR8_uc002ywt.3_5'Flank|DSCR8_uc010gnp.2_5'Flank|DSCR8_uc010gnq.2_5'Flank|DSCR8_uc010gnr.2_5'Flank|DSCR8_uc010gns.2_5'Flank	NM_005867	NP_005858	P56555	DSCR4_HUMAN	Down syndrome critical region protein 4											ovary(1)	1						tcttctctaggaaaattcagt	0.000													7	16	---	---	---	---	PASS
DSCAM	1826	broad.mit.edu	37	21	41450784	41450784	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:41450784C>T	uc002yyq.1	-	26	4993	c.4541G>A	c.(4540-4542)AGG>AAG	p.R1514K	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	1514	Extracellular (Potential).|Fibronectin type-III 6.				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)				CCCAAAGGGCCTGTACTCTAG	0.562													9	17	---	---	---	---	PASS
DSCAM	1826	broad.mit.edu	37	21	41710112	41710112	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:41710112C>T	uc002yyq.1	-	8	2151	c.1699G>A	c.(1699-1701)GAA>AAA	p.E567K	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	567	Extracellular (Potential).|Ig-like C2-type 6.				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)				TCGTCCACTTCCTTTTGCACA	0.493													19	45	---	---	---	---	PASS
DSCAM	1826	broad.mit.edu	37	21	41710113	41710113	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:41710113C>T	uc002yyq.1	-	8	2150	c.1698G>A	c.(1696-1698)AAG>AAA	p.K566K	DSCAM_uc002yyr.1_RNA	NM_001389	NP_001380	O60469	DSCAM_HUMAN	Down syndrome cell adhesion molecule isoform	566	Extracellular (Potential).|Ig-like C2-type 6.				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)				CGTCCACTTCCTTTTGCACAT	0.488													18	47	---	---	---	---	PASS
TMPRSS2	7113	broad.mit.edu	37	21	42843869	42843869	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:42843869C>T	uc002yzj.2	-	10	1073	c.939G>A	c.(937-939)GGG>GGA	p.G313G	TMPRSS2_uc010gor.2_Silent_p.G350G|TMPRSS2_uc010gos.1_Silent_p.G313G	NM_005656	NP_005647	O15393	TMPS2_HUMAN	transmembrane protease, serine 2 isoform 2	313	Peptidase S1.|Extracellular (Potential).				proteolysis	cytoplasm|extracellular region|integral to plasma membrane	scavenger receptor activity|serine-type endopeptidase activity		TMPRSS2/ERG(2499)|TMPRSS2/ETV1(24)	prostate(2523)|central_nervous_system(1)	2524		Prostate(19;4.48e-07)|all_epithelial(19;0.031)				GTCTCAAAATCCCCGCAAATG	0.428			T	ERG|ETV1|ETV4|ETV5	prostate 								17	33	---	---	---	---	PASS
UMODL1	89766	broad.mit.edu	37	21	43496237	43496237	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:43496237G>A	uc002zaf.1	+	2	200	c.200G>A	c.(199-201)TGG>TAG	p.W67*	UMODL1_uc002zad.1_5'UTR|UMODL1_uc002zae.1_5'UTR|UMODL1_uc002zag.1_Nonsense_Mutation_p.W67*|uc002zah.1_RNA	NM_001004416	NP_001004416	Q5DID0	UROL1_HUMAN	uromodulin-like 1 isoform 1 precursor	67	Extracellular (Potential).|EMI.					cytoplasm|extracellular region|integral to membrane|plasma membrane	calcium ion binding|peptidase inhibitor activity			ovary(2)|skin(1)	3						TGGATCCCCTGGAGGCGGTGC	0.597													10	29	---	---	---	---	PASS
UMODL1	89766	broad.mit.edu	37	21	43496238	43496238	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:43496238G>A	uc002zaf.1	+	2	201	c.201G>A	c.(199-201)TGG>TGA	p.W67*	UMODL1_uc002zad.1_5'UTR|UMODL1_uc002zae.1_5'UTR|UMODL1_uc002zag.1_Nonsense_Mutation_p.W67*|uc002zah.1_RNA	NM_001004416	NP_001004416	Q5DID0	UROL1_HUMAN	uromodulin-like 1 isoform 1 precursor	67	Extracellular (Potential).|EMI.					cytoplasm|extracellular region|integral to membrane|plasma membrane	calcium ion binding|peptidase inhibitor activity			ovary(2)|skin(1)	3						GGATCCCCTGGAGGCGGTGCC	0.602													10	29	---	---	---	---	PASS
UMODL1	89766	broad.mit.edu	37	21	43547287	43547287	+	Silent	SNP	G	T	T	rs147967794	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:43547287G>T	uc002zaf.1	+	19	3465	c.3465G>T	c.(3463-3465)ACG>ACT	p.T1155T	UMODL1_uc002zad.1_Silent_p.T1083T|UMODL1_uc002zae.1_Silent_p.T1211T|UMODL1_uc002zag.1_Silent_p.T1283T|UMODL1_uc002zal.1_Silent_p.T105T|UMODL1_uc010gpa.1_5'Flank	NM_001004416	NP_001004416	Q5DID0	UROL1_HUMAN	uromodulin-like 1 isoform 1 precursor	1155	Extracellular (Potential).|ZP.					cytoplasm|extracellular region|integral to membrane|plasma membrane	calcium ion binding|peptidase inhibitor activity			ovary(2)|skin(1)	3						TGGTCCTGACGGAGTGCTGGG	0.567													14	38	---	---	---	---	PASS
PDE9A	5152	broad.mit.edu	37	21	44108093	44108093	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:44108093G>A	uc002zbm.2	+	3	270	c.207G>A	c.(205-207)GCG>GCA	p.A69A	PDE9A_uc002zbn.2_Intron|PDE9A_uc002zbo.2_Silent_p.A69A|PDE9A_uc002zbp.2_Intron|PDE9A_uc002zbq.2_Missense_Mutation_p.E46K|PDE9A_uc002zbs.2_Intron|PDE9A_uc002zbr.2_Intron|PDE9A_uc002zbt.2_Intron|PDE9A_uc002zbu.2_Silent_p.A28A|PDE9A_uc002zbv.2_Intron|PDE9A_uc002zbw.2_Intron|PDE9A_uc002zbx.2_Silent_p.A69A|PDE9A_uc002zby.2_Intron|PDE9A_uc002zbz.2_5'UTR|PDE9A_uc002zca.2_Silent_p.A28A|PDE9A_uc002zcb.2_Intron|PDE9A_uc002zcc.2_Silent_p.A28A|PDE9A_uc002zcd.2_Intron|PDE9A_uc002zce.2_Intron|PDE9A_uc002zcf.2_5'UTR|PDE9A_uc002zcg.2_Intron	NM_002606	NP_002597	O76083	PDE9A_HUMAN	phosphodiesterase 9A isoform a	69					platelet activation|signal transduction	cytosol|endoplasmic reticulum|Golgi apparatus|perinuclear region of cytoplasm|ruffle membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding|protein binding			ovary(1)|skin(1)	2						CCATGCCCGCGAATTCAGAAC	0.582													13	34	---	---	---	---	PASS
PDE9A	5152	broad.mit.edu	37	21	44174092	44174092	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:44174092C>T	uc002zbm.2	+						PDE9A_uc002zbn.2_Intron|PDE9A_uc002zbo.2_Intron|PDE9A_uc002zbp.2_Intron|PDE9A_uc002zbq.2_Intron|PDE9A_uc002zbs.2_Intron|PDE9A_uc002zbr.2_Intron|PDE9A_uc002zbt.2_Intron|PDE9A_uc002zbu.2_Intron|PDE9A_uc002zbv.2_Intron|PDE9A_uc002zbw.2_Intron|PDE9A_uc002zbx.2_Intron|PDE9A_uc002zby.2_Intron|PDE9A_uc002zbz.2_Intron|PDE9A_uc002zca.2_Intron|PDE9A_uc002zcb.2_Intron|PDE9A_uc002zcc.2_Intron|PDE9A_uc002zcd.2_Intron|PDE9A_uc002zce.2_Intron|PDE9A_uc002zcf.2_Intron|PDE9A_uc002zcg.2_Intron|PDE9A_uc002zch.2_Intron|PDE9A_uc010gpf.1_Intron	NM_002606	NP_002597	O76083	PDE9A_HUMAN	phosphodiesterase 9A isoform a						platelet activation|signal transduction	cytosol|endoplasmic reticulum|Golgi apparatus|perinuclear region of cytoplasm|ruffle membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding|protein binding			ovary(1)|skin(1)	2						AACTCCTGTCCTTTCTAGTAC	0.527													6	11	---	---	---	---	PASS
PDE9A	5152	broad.mit.edu	37	21	44190846	44190846	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:44190846C>A	uc002zbm.2	+	18	1687	c.1624C>A	c.(1624-1626)CCA>ACA	p.P542T	PDE9A_uc002zbn.2_Missense_Mutation_p.P415T|PDE9A_uc002zbo.2_Missense_Mutation_p.P489T|PDE9A_uc002zbp.2_Missense_Mutation_p.P335T|PDE9A_uc002zbq.2_Missense_Mutation_p.P440T|PDE9A_uc002zbs.2_Missense_Mutation_p.P335T|PDE9A_uc002zbr.2_Missense_Mutation_p.P335T|PDE9A_uc002zbt.2_Missense_Mutation_p.P414T|PDE9A_uc002zbu.2_Missense_Mutation_p.P408T|PDE9A_uc002zbv.2_Missense_Mutation_p.P382T|PDE9A_uc002zbw.2_Missense_Mutation_p.P325T|PDE9A_uc002zbx.2_Missense_Mutation_p.P482T|PDE9A_uc002zby.2_Missense_Mutation_p.P325T|PDE9A_uc002zbz.2_Missense_Mutation_p.P434T|PDE9A_uc002zca.2_Missense_Mutation_p.P501T|PDE9A_uc002zcb.2_Missense_Mutation_p.P516T|PDE9A_uc002zcc.2_Missense_Mutation_p.P441T|PDE9A_uc002zcd.2_Missense_Mutation_p.P456T|PDE9A_uc002zce.2_Missense_Mutation_p.P475T|PDE9A_uc002zcf.2_Missense_Mutation_p.P335T|PDE9A_uc002zcg.2_Missense_Mutation_p.P335T|PDE9A_uc002zch.2_Missense_Mutation_p.P325T	NM_002606	NP_002597	O76083	PDE9A_HUMAN	phosphodiesterase 9A isoform a	542	Catalytic (By similarity).				platelet activation|signal transduction	cytosol|endoplasmic reticulum|Golgi apparatus|perinuclear region of cytoplasm|ruffle membrane	3',5'-cyclic-GMP phosphodiesterase activity|metal ion binding|protein binding			ovary(1)|skin(1)	2						CATGCTGCAGCCACTTTGGGA	0.517													9	17	---	---	---	---	PASS
CBS	875	broad.mit.edu	37	21	44492175	44492175	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:44492175C>T	uc002zcu.2	-	3	374	c.129G>A	c.(127-129)TGG>TGA	p.W43*	CBS_uc002zct.2_Nonsense_Mutation_p.W43*|CBS_uc002zcw.3_Nonsense_Mutation_p.W43*|CBS_uc002zcv.2_Nonsense_Mutation_p.W43*	NM_000071	NP_000062	P35520	CBS_HUMAN	cystathionine-beta-synthase	43					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)	CGGGCCGGATCCACAGGGGCT	0.672													13	25	---	---	---	---	PASS
PDXK	8566	broad.mit.edu	37	21	45173564	45173564	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:45173564C>T	uc002zdm.3	+	9	921	c.723C>T	c.(721-723)CTC>CTT	p.L241L	PDXK_uc010gpj.2_Silent_p.L241L|PDXK_uc002zdn.3_Silent_p.L213L|PDXK_uc002zdq.3_Silent_p.L168L	NM_003681	NP_003672	O00764	PDXK_HUMAN	pyridoxal kinase	241					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)	CTGCCATGCTCCTGGCGTGGA	0.617													17	36	---	---	---	---	PASS
C21orf29	54084	broad.mit.edu	37	21	45950965	45950965	+	Silent	SNP	G	A	A	rs150521283	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:45950965G>A	uc002zfe.1	-	4	660	c.594C>T	c.(592-594)TTC>TTT	p.F198F	C21orf29_uc010gpv.1_Silent_p.F130F	NM_144991	NP_659428	Q8WU66	TSEAR_HUMAN	chromosome 21 open reading frame 29 precursor	198	TSP N-terminal.				cell adhesion	extracellular region	structural molecule activity				0						TGCCGACGAAGAATCGAGCTC	0.597													5	17	---	---	---	---	PASS
C21orf29	54084	broad.mit.edu	37	21	45953714	45953714	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:45953714G>A	uc002zfe.1	-	3	462	c.396C>T	c.(394-396)TTC>TTT	p.F132F	C21orf29_uc010gpv.1_Silent_p.F64F	NM_144991	NP_659428	Q8WU66	TSEAR_HUMAN	chromosome 21 open reading frame 29 precursor	132	TSP N-terminal.				cell adhesion	extracellular region	structural molecule activity				0						CCTCGCGAAGGAACAGGAAGT	0.677													4	11	---	---	---	---	PASS
KRTAP10-12	386685	broad.mit.edu	37	21	46117566	46117566	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:46117566C>T	uc002zfw.1	+	1	480	c.450C>T	c.(448-450)TCC>TCT	p.S150S	C21orf29_uc002zfe.1_Intron|C21orf29_uc010gpv.1_Intron	NM_198699	NP_941972	P60413	KR10C_HUMAN	keratin associated protein 10-12	150	19 X 5 AA repeats of C-C-X(3).					keratin filament					0						GTCAACAGTCCTGCTGTGTGC	0.612													71	122	---	---	---	---	PASS
COL6A1	1291	broad.mit.edu	37	21	47407403	47407403	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:47407403C>T	uc002zhu.1	+							NM_001848	NP_001839	P12109	CO6A1_HUMAN	collagen, type VI, alpha 1 precursor						axon guidance|cell adhesion|protein heterotrimerization	collagen type VI|protein complex	platelet-derived growth factor binding			ovary(1)	1	all_hematologic(128;0.24)			Colorectal(79;0.0265)|READ - Rectum adenocarcinoma(84;0.0649)	Palifermin(DB00039)	TCCATGCTTTCCCCCCACAGT	0.542													25	79	---	---	---	---	PASS
COL6A2	1292	broad.mit.edu	37	21	47546007	47546007	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:47546007G>A	uc002zia.1	+	26	2360	c.2278G>A	c.(2278-2280)GGG>AGG	p.G760R	COL6A2_uc002zhy.1_Missense_Mutation_p.G760R|COL6A2_uc002zhz.1_Missense_Mutation_p.G760R|COL6A2_uc002zib.1_Missense_Mutation_p.G166R|COL6A2_uc002zic.1_5'Flank	NM_001849	NP_001840	P12110	CO6A2_HUMAN	alpha 2 type VI collagen isoform 2C2 precursor	760	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)		CATCGGCATCGGGGACATGTT	0.627													57	99	---	---	---	---	PASS
MCM3AP	8888	broad.mit.edu	37	21	47663398	47663398	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:47663398G>A	uc002zir.1	-	24	5313	c.5277C>T	c.(5275-5277)CCC>CCT	p.P1759P	MCM3APAS_uc002zim.2_Intron|MCM3APAS_uc002zin.2_Intron|MCM3AP_uc002zio.1_Silent_p.P254P|MCM3AP_uc002zip.1_Silent_p.P500P|MCM3AP_uc002ziq.1_Silent_p.P686P|MCM3APAS_uc002zis.1_Intron	NM_003906	NP_003897	O60318	MCM3A_HUMAN	minichromosome maintenance complex component 3	1759					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)					CAGGAAGCCGGGGGGGCGTCC	0.532													31	60	---	---	---	---	PASS
PCNT	5116	broad.mit.edu	37	21	47769664	47769664	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:47769664C>T	uc002zji.3	+	8	1381	c.1274C>T	c.(1273-1275)TCC>TTC	p.S425F	PCNT_uc002zjj.2_Missense_Mutation_p.S307F|PCNT_uc010gqk.1_RNA	NM_006031	NP_006022	O95613	PCNT_HUMAN	pericentrin	425	Glu-rich.|Potential.				cilium assembly|G2/M transition of mitotic cell cycle	cytosol|microtubule	calmodulin binding			ovary(4)|breast(2)|pancreas(2)	8	Breast(49;0.112)					GACCTGCAGTCCGAGCACGGC	0.468													22	56	---	---	---	---	PASS
CCT8L2	150160	broad.mit.edu	37	22	17071927	17071927	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:17071927C>T	uc002zlp.1	-	1	1774	c.1514G>A	c.(1513-1515)CGA>CAA	p.R505Q		NM_014406	NP_055221	Q96SF2	TCPQM_HUMAN	T-complex protein 1	505					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)				AGCCACTGCTCGAAATCCTTG	0.507													68	56	---	---	---	---	PASS
CCT8L2	150160	broad.mit.edu	37	22	17073174	17073174	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:17073174G>A	uc002zlp.1	-	1	527	c.267C>T	c.(265-267)CTC>CTT	p.L89L		NM_014406	NP_055221	Q96SF2	TCPQM_HUMAN	T-complex protein 1	89					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)				CTTCCCGGAGGAGCCATGCTG	0.612													11	40	---	---	---	---	PASS
CCT8L2	150160	broad.mit.edu	37	22	17073361	17073361	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:17073361T>C	uc002zlp.1	-	1	340	c.80A>G	c.(79-81)GAA>GGA	p.E27G		NM_014406	NP_055221	Q96SF2	TCPQM_HUMAN	T-complex protein 1	27					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)				CTCCTCCTCTTCTGGACTCCT	0.662													28	13	---	---	---	---	PASS
XKR3	150165	broad.mit.edu	37	22	17288864	17288864	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:17288864G>A	uc002zlv.2	-	2	198	c.100C>T	c.(100-102)CCT>TCT	p.P34S	XKR3_uc011agf.1_Missense_Mutation_p.P34S	NM_175878	NP_787074	Q5GH77	XKR3_HUMAN	X Kell blood group precursor-related family,	34						integral to membrane|plasma membrane				large_intestine(1)|ovary(1)|skin(1)	3	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)				ATGCTAAAAGGAAAGCTTAGA	0.388													32	55	---	---	---	---	PASS
IL17RA	23765	broad.mit.edu	37	22	17578719	17578719	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:17578719C>T	uc002zly.2	+	3	329	c.196C>T	c.(196-198)CGA>TGA	p.R66*	IL17RA_uc010gqt.2_Nonsense_Mutation_p.R66*	NM_014339	NP_055154	Q96F46	I17RA_HUMAN	interleukin 17A receptor precursor	66	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)		GATTCACCCTCGAAACCTGAC	0.577													5	35	---	---	---	---	PASS
IL17RA	23765	broad.mit.edu	37	22	17584437	17584437	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:17584437C>T	uc002zly.2	+	8	949	c.816C>T	c.(814-816)AAC>AAT	p.N272N	IL17RA_uc010gqt.2_Silent_p.N272N	NM_014339	NP_055154	Q96F46	I17RA_HUMAN	interleukin 17A receptor precursor	272	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)		CTCTACGCAACCTTAAAGGGT	0.557													14	10	---	---	---	---	PASS
CECR5	27440	broad.mit.edu	37	22	17619484	17619484	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:17619484C>A	uc002zmf.2	-	7	919	c.891G>T	c.(889-891)GAG>GAT	p.E297D	CECR5_uc002zmd.2_Missense_Mutation_p.E108D|CECR5_uc002zme.2_Missense_Mutation_p.E89D|CECR5_uc002zmg.2_Intron|CECR5_uc002zmh.2_Missense_Mutation_p.E267D	NM_033070	NP_149061	Q9BXW7	CECR5_HUMAN	cat eye syndrome chromosome region, candidate 5	297				E -> G (in Ref. 2; BAA91475).			hydrolase activity				0		all_epithelial(15;0.0181)|Lung NSC(13;0.109)|all_lung(157;0.132)				AGCCCCGCCTCTCCGCCTGTC	0.602													25	87	---	---	---	---	PASS
CECR1	51816	broad.mit.edu	37	22	17680473	17680473	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:17680473C>T	uc002zmk.1	-						CECR1_uc010gqu.1_Intron|CECR1_uc011agi.1_Intron|CECR1_uc011agj.1_Intron|CECR1_uc002zmj.1_5'UTR	NM_017424	NP_059120	Q9NZK5	CECR1_HUMAN	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)				ATCCATCTCCCCTCCGGAAAA	0.463													8	24	---	---	---	---	PASS
BCL2L13	23786	broad.mit.edu	37	22	18178929	18178929	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:18178929C>T	uc002zmw.2	+	5	627	c.409C>T	c.(409-411)CGG>TGG	p.R137W	BCL2L13_uc002zmu.2_Missense_Mutation_p.R137W|BCL2L13_uc002zmv.2_Missense_Mutation_p.R137W|BCL2L13_uc002zmx.2_5'UTR|BCL2L13_uc002zmy.2_Intron|BCL2L13_uc010gqy.2_Intron|BCL2L13_uc011agk.1_Intron|BCL2L13_uc010gqz.2_Intron|BCL2L13_uc002zmz.2_Intron	NM_015367	NP_056182	Q9BXK5	B2L13_HUMAN	BCL2-like 13 (apoptosis facilitator)	137					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)		TCAGGCATTTCGGGAATGTAC	0.368													28	22	---	---	---	---	PASS
MICAL3	57553	broad.mit.edu	37	22	18387540	18387540	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:18387540G>A	uc002zng.3	-	3	683	c.330C>T	c.(328-330)GCC>GCT	p.A110A	MICAL3_uc011agl.1_Silent_p.A110A|MICAL3_uc002znh.2_Silent_p.A110A|MICAL3_uc002znj.1_5'Flank|MICAL3_uc002znk.1_Silent_p.A110A|MICAL3_uc002znl.1_5'UTR|MICAL3_uc010grf.2_Silent_p.A110A|MICAL3_uc011agm.1_Silent_p.A110A	NM_015241	NP_056056	Q7RTP6	MICA3_HUMAN	microtubule associated monoxygenase, calponin	110	FAD (Potential).					cytoplasm|cytoskeleton	monooxygenase activity|zinc ion binding				0		all_epithelial(15;0.198)		Lung(27;0.0427)		CAACCACCTTGGCCCCCAGTA	0.537													49	48	---	---	---	---	PASS
TXNRD2	10587	broad.mit.edu	37	22	19903294	19903294	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:19903294C>T	uc011ahc.1	-	6	555	c.522G>A	c.(520-522)GGG>GGA	p.G174G	TXNRD2_uc002zql.1_5'UTR|TXNRD2_uc002zqm.1_RNA|TXNRD2_uc002zqn.1_RNA|TXNRD2_uc002zqo.1_RNA|TXNRD2_uc002zqp.1_RNA|TXNRD2_uc002zqr.1_Silent_p.G173G|TXNRD2_uc010grv.1_Silent_p.G174G|TXNRD2_uc002zqj.1_RNA|TXNRD2_uc002zqs.2_Silent_p.G142G	NM_006440	NP_006431	Q9NNW7	TRXR2_HUMAN	thioredoxin reductase 2 precursor	174					cell redox homeostasis|response to oxygen radical	mitochondrion	flavin adenine dinucleotide binding|NADP binding|thioredoxin-disulfide reductase activity			ovary(2)	2	Colorectal(54;0.0993)					TCACCTCTTTCCCACCTTTGG	0.483													18	18	---	---	---	---	PASS
ZNF74	7625	broad.mit.edu	37	22	20761087	20761087	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:20761087C>T	uc010gsm.2	+	6	1976	c.1764C>T	c.(1762-1764)TTC>TTT	p.F588F	ZNF74_uc002zsg.2_Silent_p.F517F|ZNF74_uc002zsh.2_Silent_p.F588F|ZNF74_uc002zsi.2_Silent_p.F517F|ZNF74_uc010gsn.2_Silent_p.F517F	NM_003426	NP_003417	Q16587	ZNF74_HUMAN	zinc finger protein 74	588					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)			Ccatccagttcaacaaacacc	0.368													22	20	---	---	---	---	PASS
SERPIND1	3053	broad.mit.edu	37	22	21133804	21133804	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:21133804C>A	uc002ztb.1	+	2	271	c.204C>A	c.(202-204)GAC>GAA	p.D68E	PI4KA_uc002zsz.3_Intron|SERPIND1_uc002ztc.2_Missense_Mutation_p.D96E	NM_000185	NP_000176	P05546	HEP2_HUMAN	heparin cofactor II precursor	68	Chemotactic activity.				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)	TCACCAACGACTGGATTCCAG	0.512													7	36	---	---	---	---	PASS
SLC7A4	6545	broad.mit.edu	37	22	21385699	21385699	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:21385699G>A	uc002zud.2	-	2	471	c.403C>T	c.(403-405)CGT>TGT	p.R135C	SLC7A4_uc002zue.2_Missense_Mutation_p.R135C	NM_004173	NP_004164	O43246	CTR4_HUMAN	solute carrier family 7 (cationic amino acid	135					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)	CTCCAGGCACGGGCCACGGCG	0.602													5	12	---	---	---	---	PASS
SLC7A4	6545	broad.mit.edu	37	22	21385700	21385700	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:21385700G>A	uc002zud.2	-	2	470	c.402C>T	c.(400-402)GCC>GCT	p.A134A	SLC7A4_uc002zue.2_Silent_p.A134A	NM_004173	NP_004164	O43246	CTR4_HUMAN	solute carrier family 7 (cationic amino acid	134					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)	TCCAGGCACGGGCCACGGCGG	0.607													5	13	---	---	---	---	PASS
CCDC116	164592	broad.mit.edu	37	22	21991155	21991155	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:21991155C>T	uc002zve.2	+	5	1731	c.1638C>T	c.(1636-1638)CTC>CTT	p.L546L		NM_152612	NP_689825	Q8IYX3	CC116_HUMAN	coiled-coil domain containing 116	Error:AA_residue_mismatch_between_GAF_and_UniProt_prot_seqs_after_alignment										ovary(1)|skin(1)	2	Colorectal(54;0.105)					GCCGCTCCCTCTACACCAACT	0.647													15	24	---	---	---	---	PASS
TOP3B	8940	broad.mit.edu	37	22	22316834	22316834	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:22316834C>T	uc002zvs.2	-	13	1927	c.1492G>A	c.(1492-1494)GAG>AAG	p.E498K	TOP3B_uc010gtm.1_Missense_Mutation_p.E43K|TOP3B_uc002zvr.2_Missense_Mutation_p.E223K|TOP3B_uc010gtl.2_Missense_Mutation_p.E498K|TOP3B_uc002zvt.3_Missense_Mutation_p.E498K	NM_003935	NP_003926	O95985	TOP3B_HUMAN	topoisomerase (DNA) III beta	498					DNA topological change	nucleus	ATP binding|DNA topoisomerase type I activity|protein binding			kidney(1)	1	Colorectal(54;0.105)			READ - Rectum adenocarcinoma(21;0.145)		GTGATGAGCTCGGCCTCCGTC	0.642													13	40	---	---	---	---	PASS
TOP3B	8940	broad.mit.edu	37	22	22322062	22322062	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:22322062G>A	uc002zvs.2	-	8	1200	c.765C>T	c.(763-765)CTC>CTT	p.L255L	TOP3B_uc010gtm.1_5'UTR|TOP3B_uc002zvr.2_5'UTR|TOP3B_uc010gtl.2_Silent_p.L255L|TOP3B_uc002zvt.3_Silent_p.L255L	NM_003935	NP_003926	O95985	TOP3B_HUMAN	topoisomerase (DNA) III beta	255					DNA topological change	nucleus	ATP binding|DNA topoisomerase type I activity|protein binding			kidney(1)	1	Colorectal(54;0.105)			READ - Rectum adenocarcinoma(21;0.145)		AGTCCAAAAGGAGAGATCTGT	0.498													38	42	---	---	---	---	PASS
LOC96610	96610	broad.mit.edu	37	22	22550592	22550592	+	RNA	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:22550592C>T	uc011aim.1	+	11		c.1086C>T								Parts of antibodies, mostly variable regions.												0						GACAGCTCCTCCAACTCTGCC	0.562													22	34	---	---	---	---	PASS
ZNF280A	129025	broad.mit.edu	37	22	22869822	22869822	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:22869822C>T	uc002zwe.2	-	2	386	c.133G>A	c.(133-135)GAA>AAA	p.E45K	LOC96610_uc011aim.1_Intron	NM_080740	NP_542778	P59817	Z280A_HUMAN	zinc finger protein 280A	45					regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)	1	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)		READ - Rectum adenocarcinoma(21;0.145)		AAGAGAACTTCAGCATCTCTA	0.413													45	51	---	---	---	---	PASS
PRAME	23532	broad.mit.edu	37	22	22890618	22890618	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:22890618G>A	uc002zwf.2	-	5	1557	c.1401C>T	c.(1399-1401)CTC>CTT	p.L467L	LOC96610_uc011aim.1_Intron|PRAME_uc011air.1_Silent_p.L451L|PRAME_uc010gtr.2_Silent_p.L467L|PRAME_uc002zwg.2_Silent_p.L467L|PRAME_uc002zwh.2_Silent_p.L467L|PRAME_uc002zwi.2_Silent_p.L467L|PRAME_uc002zwj.2_Silent_p.L467L|PRAME_uc002zwk.2_Silent_p.L467L	NM_206956	NP_996839	P78395	PRAME_HUMAN	preferentially expressed antigen in melanoma	467	Mediates interaction with RARA.				apoptosis|cell differentiation|negative regulation of apoptosis|negative regulation of cell differentiation|negative regulation of retinoic acid receptor signaling pathway|negative regulation of transcription, DNA-dependent|positive regulation of cell proliferation|regulation of growth|transcription, DNA-dependent	nucleus|plasma membrane	retinoic acid receptor binding			central_nervous_system(2)	2	all_hematologic(9;0.0135)|Acute lymphoblastic leukemia(84;0.17)	all_hematologic(6;1.74e-30)|Acute lymphoblastic leukemia(6;7.75e-22)|all_lung(157;4.03e-05)		READ - Rectum adenocarcinoma(21;0.0649)		GCAACTCCCTGAGCCTGGCAT	0.592													17	43	---	---	---	---	PASS
LOC96610	96610	broad.mit.edu	37	22	23040635	23040635	+	RNA	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:23040635C>T	uc011aim.1	+	137		c.8542C>T								Parts of antibodies, mostly variable regions.												0						CAGCCTGCCTCCGTGTCTGGG	0.592													51	142	---	---	---	---	PASS
GNAZ	2781	broad.mit.edu	37	22	23438057	23438057	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:23438057G>T	uc002zwu.1	+	2	712	c.175G>T	c.(175-177)GGC>TGC	p.G59C	RTDR1_uc002zwt.2_Intron	NM_002073	NP_002064	P19086	GNAZ_HUMAN	guanine nucleotide binding protein, alpha z	59						endoplasmic reticulum|heterotrimeric G-protein complex|nuclear envelope	G-protein beta/gamma-subunit complex binding|GTP binding|GTPase activity|guanyl-nucleotide exchange factor activity|metabotropic serotonin receptor binding|receptor signaling protein activity			kidney(1)|skin(1)	2	all_hematologic(9;0.0197)|Acute lymphoblastic leukemia(84;0.181)			READ - Rectum adenocarcinoma(21;0.166)		CATCCACAGCGGCGGCTTCAA	0.602													5	86	---	---	---	---	PASS
BCR	613	broad.mit.edu	37	22	23656897	23656897	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:23656897C>T	uc002zww.2	+	22	4318	c.3722C>T	c.(3721-3723)TCC>TTC	p.S1241F	BCR_uc002zwx.2_Missense_Mutation_p.S1197F|BCR_uc011aiy.1_Missense_Mutation_p.S830F	NM_004327	NP_004318	P11274	BCR_HUMAN	breakpoint cluster region isoform 1	1241	Rho-GAP.				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						GAGGTCATGTCCCAGGTATGG	0.627			T	ABL1| FGFR1|JAK2 	CML|ALL|AML								10	12	---	---	---	---	PASS
RGL4	266747	broad.mit.edu	37	22	24034555	24034555	+	Silent	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:24034555C>A	uc002zxn.2	+	2	1383	c.213C>A	c.(211-213)CCC>CCA	p.P71P	LOC91316_uc002zxh.3_RNA|LOC91316_uc002zxi.3_RNA|LOC91316_uc002zxk.3_Intron|LOC91316_uc010gua.2_Intron|LOC91316_uc002zxl.3_Intron|LOC91316_uc011aiz.1_Intron|LOC91316_uc002zxm.3_Intron|RGL4_uc002zxo.2_Silent_p.P71P|RGL4_uc002zxp.1_5'UTR|RGL4_uc002zxq.2_5'UTR	NM_153615	NP_705843	Q8IZJ4	RGDSR_HUMAN	ral guanine nucleotide dissociation	71					small GTPase mediated signal transduction	cytoplasmic membrane-bounded vesicle	guanyl-nucleotide exchange factor activity			ovary(1)	1						ACTGGCCCCCCGAAAACACTT	0.577													5	155	---	---	---	---	PASS
SUSD2	56241	broad.mit.edu	37	22	24580109	24580109	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:24580109C>T	uc002zzn.1	+	4	489	c.445C>T	c.(445-447)CCC>TCC	p.P149S		NM_019601	NP_062547	Q9UGT4	SUSD2_HUMAN	sushi domain containing 2 precursor	149	Extracellular (Potential).				immune response	integral to membrane	polysaccharide binding|protein binding|scavenger receptor activity			skin(1)	1						CCCAGTGCACCCCAACAAAGT	0.632													39	41	---	---	---	---	PASS
GGT5	2687	broad.mit.edu	37	22	24621080	24621080	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:24621080G>A	uc002zzo.3	-						GGT5_uc002zzp.3_Intron|GGT5_uc002zzr.3_Intron|GGT5_uc002zzq.3_Intron|GGT5_uc011ajm.1_Intron	NM_004121	NP_004112	P36269	GGT5_HUMAN	gamma-glutamyltransferase 5 isoform b						glutathione biosynthetic process|hormone biosynthetic process|leukotriene biosynthetic process|prostanoid metabolic process	integral to membrane|plasma membrane	acyltransferase activity|gamma-glutamyltransferase activity			ovary(2)|skin(1)	3						ATGGCCTGGGGGAGAGATGAG	0.582													8	4	---	---	---	---	PASS
ADORA2A	135	broad.mit.edu	37	22	24829655	24829655	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:24829655C>T	uc002zzx.2	+	4	1046	c.283C>T	c.(283-285)CTC>TTC	p.L95F	ADORA2A_uc002zzy.3_Missense_Mutation_p.L95F|ADORA2A_uc011ajs.1_Intron|C22orf45_uc003aaa.1_5'Flank|ADORA2A_uc010guo.1_Missense_Mutation_p.S114F|ADORA2A_uc010gup.2_Missense_Mutation_p.L95F|ADORA2A_uc010guq.2_Missense_Mutation_p.L95F|ADORA2A_uc003aab.2_Missense_Mutation_p.L95F|ADORA2A_uc003aac.2_5'UTR	NM_000675	NP_000666	P29274	AA2AR_HUMAN	adenosine A2a receptor	95	Helical; Name=3.				apoptosis|blood coagulation|cAMP biosynthetic process|cellular defense response|inflammatory response|nerve growth factor receptor signaling pathway|phagocytosis|sensory perception	integral to plasma membrane|membrane fraction	enzyme binding				0	Colorectal(2;0.196)				Caffeine(DB00201)|Defibrotide(DB04932)|Pegademase bovine(DB00061)|Theophylline(DB00277)	CATCTTCAGTCTCCTGGCCAT	0.612													15	15	---	---	---	---	PASS
ADORA2A	135	broad.mit.edu	37	22	24837072	24837072	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:24837072C>T	uc002zzx.2	+	5	1617	c.854C>T	c.(853-855)CCC>CTC	p.P285L	ADORA2A_uc002zzy.3_Missense_Mutation_p.P285L|ADORA2A_uc011ajs.1_Missense_Mutation_p.P146L|ADORA2A_uc010gup.2_Missense_Mutation_p.P285L|ADORA2A_uc010guq.2_Missense_Mutation_p.P285L|ADORA2A_uc003aab.2_Missense_Mutation_p.P285L|ADORA2A_uc003aac.2_Missense_Mutation_p.P146L|C22orf45_uc003aad.1_Intron	NM_000675	NP_000666	P29274	AA2AR_HUMAN	adenosine A2a receptor	285	Helical; Name=7.				apoptosis|blood coagulation|cAMP biosynthetic process|cellular defense response|inflammatory response|nerve growth factor receptor signaling pathway|phagocytosis|sensory perception	integral to plasma membrane|membrane fraction	enzyme binding				0	Colorectal(2;0.196)				Caffeine(DB00201)|Defibrotide(DB04932)|Pegademase bovine(DB00061)|Theophylline(DB00277)	GTTGTGAATCCCTTCATCTAC	0.572													9	31	---	---	---	---	PASS
SGSM1	129049	broad.mit.edu	37	22	25264494	25264494	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:25264494C>T	uc003abg.2	+	11	1303	c.1146C>T	c.(1144-1146)TCC>TCT	p.S382S	SGSM1_uc003abh.2_Silent_p.S382S|SGSM1_uc010guu.1_Silent_p.S382S|SGSM1_uc003abj.2_Silent_p.S382S|SGSM1_uc003abi.1_Silent_p.S357S	NM_001039948	NP_001035037	Q2NKQ1	SGSM1_HUMAN	RUN and TBC1 domain containing 2 isoform 1	382						Golgi apparatus	Rab GTPase activator activity			ovary(2)|central_nervous_system(2)|pancreas(1)	5						CACTGTGGTCCCAGAGGGGTA	0.627													7	31	---	---	---	---	PASS
MYO18B	84700	broad.mit.edu	37	22	26164576	26164576	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:26164576G>A	uc003abz.1	+	4	943	c.693G>A	c.(691-693)CTG>CTA	p.L231L	MYO18B_uc003aca.1_Silent_p.L112L|MYO18B_uc010guy.1_Silent_p.L112L|MYO18B_uc010guz.1_Silent_p.L112L|MYO18B_uc011aka.1_5'UTR|MYO18B_uc011akb.1_5'Flank	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	231						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						CTGTGGCACTGAAAAAAGGCG	0.617													4	13	---	---	---	---	PASS
MYO18B	84700	broad.mit.edu	37	22	26166090	26166090	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:26166090G>A	uc003abz.1	+	5	1776	c.1526G>A	c.(1525-1527)AGA>AAA	p.R509K	MYO18B_uc003aca.1_Missense_Mutation_p.R390K|MYO18B_uc010guy.1_Missense_Mutation_p.R390K|MYO18B_uc010guz.1_Missense_Mutation_p.R390K|MYO18B_uc011aka.1_5'UTR|MYO18B_uc011akb.1_Missense_Mutation_p.R22K	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	509						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						CCTGAGGACAGATGGTATGAG	0.502													32	41	---	---	---	---	PASS
MYO18B	84700	broad.mit.edu	37	22	26422503	26422503	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:26422503G>A	uc003abz.1	+	43	6813	c.6563G>A	c.(6562-6564)GGA>GAA	p.G2188E	MYO18B_uc003aca.1_Missense_Mutation_p.G2069E|MYO18B_uc010guy.1_Missense_Mutation_p.G2070E|MYO18B_uc010guz.1_Missense_Mutation_p.G2068E|MYO18B_uc011aka.1_Missense_Mutation_p.G1342E|MYO18B_uc011akb.1_Missense_Mutation_p.G1701E|MYO18B_uc010gva.1_Missense_Mutation_p.G171E|MYO18B_uc010gvb.1_RNA	NM_032608	NP_115997	Q8IUG5	MY18B_HUMAN	myosin XVIIIB	2188						nucleus|sarcomere|unconventional myosin complex	actin binding|ATP binding|motor activity			ovary(5)|central_nervous_system(3)|large_intestine(2)|breast(2)	12						AAGACCTCAGGAGACAAGCCT	0.557													29	33	---	---	---	---	PASS
SEZ6L	23544	broad.mit.edu	37	22	26761418	26761418	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:26761418G>A	uc003acb.2	+	13	2836	c.2680G>A	c.(2680-2682)GGA>AGA	p.G894R	SEZ6L_uc003acc.2_Missense_Mutation_p.G894R|SEZ6L_uc011akc.1_Missense_Mutation_p.G894R|SEZ6L_uc003acd.2_Missense_Mutation_p.G830R|SEZ6L_uc011akd.1_Missense_Mutation_p.G894R|SEZ6L_uc003ace.2_Intron|SEZ6L_uc003acf.1_Missense_Mutation_p.G667R|SEZ6L_uc010gvc.1_Intron|SEZ6L_uc011ake.1_RNA	NM_021115	NP_066938	Q9BYH1	SE6L1_HUMAN	seizure related 6 homolog (mouse)-like	894	Sushi 5.|Extracellular (Potential).					endoplasmic reticulum membrane|integral to membrane				ovary(4)|central_nervous_system(1)|pancreas(1)	6						CTACCTGCCAGGAGAGTCCCT	0.567													9	52	---	---	---	---	PASS
CHEK2	11200	broad.mit.edu	37	22	29092948	29092948	+	Missense_Mutation	SNP	G	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:29092948G>C	uc003adu.1	-	10	1108	c.1036C>G	c.(1036-1038)CGT>GGT	p.R346G	CHEK2_uc003ads.1_Missense_Mutation_p.R125G|CHEK2_uc010gvh.1_Missense_Mutation_p.R255G|CHEK2_uc010gvi.1_Intron|CHEK2_uc010gvj.1_Intron|CHEK2_uc003adr.1_RNA|CHEK2_uc010gvk.1_RNA|CHEK2_uc003adt.1_Missense_Mutation_p.R389G|CHEK2_uc003adv.1_Intron|CHEK2_uc003adw.1_Missense_Mutation_p.R346G|CHEK2_uc003adx.1_Missense_Mutation_p.R125G|CHEK2_uc003ady.1_Missense_Mutation_p.R346G|CHEK2_uc003adz.1_Missense_Mutation_p.R150G	NM_007194	NP_009125	O96017	CHK2_HUMAN	protein kinase CHK2 isoform a	346	Protein kinase.				cell cycle|DNA damage checkpoint|DNA damage response, signal transduction resulting in induction of apoptosis|replicative senescence	PML body	ATP binding|metal ion binding|protein binding|protein serine/threonine kinase activity	p.R346H(1)		central_nervous_system(17)|stomach(1)|ovary(1)|lung(1)	20						TTTAAGTCACGGTGTATAATA	0.383			F			breast 		Direct_reversal_of_damage|Other_conserved_DNA_damage_response_genes	Hereditary_Breast-Ovarian_Cancer_non-BRCA1/2|CHEK2-associated_cancer				5	27	---	---	---	---	PASS
ZNRF3	84133	broad.mit.edu	37	22	29445418	29445418	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:29445418C>T	uc003aeg.2	+	8	1114	c.949C>T	c.(949-951)CGC>TGC	p.R317C	ZNRF3_uc003aeh.1_Missense_Mutation_p.R317C	NM_032173	NP_115549	Q9ULT6	ZNRF3_HUMAN	zinc and ring finger 3	417	Cytoplasmic (Potential).					integral to membrane	zinc ion binding			ovary(1)	1						CGCCTACATCCGCAGCTACCC	0.692													6	3	---	---	---	---	PASS
NEFH	4744	broad.mit.edu	37	22	29885616	29885616	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:29885616C>T	uc003afo.2	+	4	2058	c.1987C>T	c.(1987-1989)CCT>TCT	p.P663S	NEFH_uc003afp.2_5'UTR	NM_021076	NP_066554	P12036	NFH_HUMAN	neurofilament, heavy polypeptide 200kDa	669	30 X 6 AA repeats of K-S-P-[AEPV]-[EAK]- [AEVK].|Tail.|15.				cell death|nervous system development	neurofilament					0						GGCCAAGTCCCCTGAGAAGGC	0.572													93	88	---	---	---	---	PASS
NEFH	4744	broad.mit.edu	37	22	29886699	29886699	+	3'UTR	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:29886699G>A	uc003afo.2	+	4					NEFH_uc003afp.2_Silent_p.G89G	NM_021076	NP_066554	P12036	NFH_HUMAN	neurofilament, heavy polypeptide 200kDa						cell death|nervous system development	neurofilament					0						GTAAGGCAGGGAGAAAGGAAC	0.478													3	16	---	---	---	---	PASS
MTMR3	8897	broad.mit.edu	37	22	30415629	30415629	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:30415629C>T	uc003agv.3	+	17	2309	c.1981C>T	c.(1981-1983)CTT>TTT	p.L661F	MTMR3_uc003agu.3_Missense_Mutation_p.L661F|MTMR3_uc003agw.3_Missense_Mutation_p.L661F	NM_021090	NP_066576	Q13615	MTMR3_HUMAN	myotubularin-related protein 3 isoform c	661					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)			AGAGGATCCCCTTTCTGCCGA	0.657													19	38	---	---	---	---	PASS
TBC1D10A	83874	broad.mit.edu	37	22	30688370	30688370	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:30688370G>A	uc011akt.1	-	11	1545	c.1521C>T	c.(1519-1521)TAC>TAT	p.Y507Y	GATSL3_uc003ahc.2_5'Flank|GATSL3_uc003ahe.2_5'Flank|GATSL3_uc003ahd.2_5'Flank|GATSL3_uc003ahf.2_Intron|GATSL3_uc003ahg.2_Intron|GATSL3_uc003ahh.2_Intron|GATSL3_uc010gvq.2_Intron|GATSL3_uc003ahi.2_Intron|GATSL3_uc010gvr.2_5'Flank|GATSL3_uc010gvs.2_5'Flank|TBC1D10A_uc003ahj.3_Silent_p.Y419Y|TBC1D10A_uc010gvu.2_Silent_p.Y514Y|TBC1D10A_uc003ahk.3_Silent_p.Y507Y	NM_031937	NP_114143	Q9BXI6	TB10A_HUMAN	TBC1 domain family, member 10A	507	Binding to the PDZ domain of EBP50.					intracellular|microvillus	guanyl-nucleotide exchange factor activity|PDZ domain binding|Rab GTPase activator activity			ovary(1)	1						AGGGTTACAAGTAGGTGTCCT	0.597													55	76	---	---	---	---	PASS
TBC1D10A	83874	broad.mit.edu	37	22	30688692	30688692	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:30688692G>A	uc011akt.1	-	11	1223	c.1199C>T	c.(1198-1200)CCC>CTC	p.P400L	GATSL3_uc003ahf.2_Intron|GATSL3_uc003ahg.2_Intron|GATSL3_uc003ahh.2_Intron|GATSL3_uc010gvq.2_Intron|GATSL3_uc003ahi.2_Intron|TBC1D10A_uc003ahj.3_Missense_Mutation_p.P312L|TBC1D10A_uc010gvu.2_Missense_Mutation_p.P407L|TBC1D10A_uc003ahk.3_Missense_Mutation_p.P400L	NM_031937	NP_114143	Q9BXI6	TB10A_HUMAN	TBC1 domain family, member 10A	400						intracellular|microvillus	guanyl-nucleotide exchange factor activity|PDZ domain binding|Rab GTPase activator activity			ovary(1)	1						GGCAGGCCGGGGACCAGGTTC	0.662													17	23	---	---	---	---	PASS
SF3A1	10291	broad.mit.edu	37	22	30733895	30733895	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:30733895G>A	uc003ahl.2	-							NM_005877	NP_005868	Q15459	SF3A1_HUMAN	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						ATCTGTGCAGGAAAGAGACCC	0.577													4	8	---	---	---	---	PASS
CCDC157	550631	broad.mit.edu	37	22	30762204	30762204	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:30762204C>T	uc011aku.1	+	3	875	c.215C>T	c.(214-216)TCC>TTC	p.S72F	CCDC157_uc011akv.1_Missense_Mutation_p.S72F	NM_001017437	NP_001017437	Q569K6	CC157_HUMAN	coiled-coil domain containing 157	72										central_nervous_system(1)	1						ACGCAGCTGTCCCATGCCGTG	0.617													22	70	---	---	---	---	PASS
SEC14L2	23541	broad.mit.edu	37	22	30795663	30795663	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:30795663C>T	uc003ahr.2	+	2	259	c.86C>T	c.(85-87)GCC>GTC	p.A29V	SEC14L2_uc003ahq.2_Missense_Mutation_p.A29V|SEC14L2_uc011akx.1_Intron|SEC14L2_uc003ahs.2_Intron|SEC14L2_uc011aky.1_Missense_Mutation_p.A29V	NM_012429	NP_036561	O76054	S14L2_HUMAN	SEC14-like 2 isoform 1	29					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane|nucleus	phospholipid binding|transporter activity|vitamin E binding				0					Vitamin E(DB00163)	GTGCTGCCGGCCCTGCCGAAT	0.627													10	12	---	---	---	---	PASS
SEC14L2	23541	broad.mit.edu	37	22	30795664	30795664	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:30795664C>T	uc003ahr.2	+	2	260	c.87C>T	c.(85-87)GCC>GCT	p.A29A	SEC14L2_uc003ahq.2_Silent_p.A29A|SEC14L2_uc011akx.1_Intron|SEC14L2_uc003ahs.2_Intron|SEC14L2_uc011aky.1_Silent_p.A29A	NM_012429	NP_036561	O76054	S14L2_HUMAN	SEC14-like 2 isoform 1	29					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane|nucleus	phospholipid binding|transporter activity|vitamin E binding				0					Vitamin E(DB00163)	TGCTGCCGGCCCTGCCGAATC	0.622													10	12	---	---	---	---	PASS
SEC14L2	23541	broad.mit.edu	37	22	30795665	30795665	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:30795665C>T	uc003ahr.2	+	2	261	c.88C>T	c.(88-90)CTG>TTG	p.L30L	SEC14L2_uc003ahq.2_Silent_p.L30L|SEC14L2_uc011akx.1_Intron|SEC14L2_uc003ahs.2_Intron|SEC14L2_uc011aky.1_Silent_p.L30L	NM_012429	NP_036561	O76054	S14L2_HUMAN	SEC14-like 2 isoform 1	30					positive regulation of transcription, DNA-dependent|transcription, DNA-dependent	integral to membrane|nucleus	phospholipid binding|transporter activity|vitamin E binding				0					Vitamin E(DB00163)	GCTGCCGGCCCTGCCGAATCC	0.617													11	12	---	---	---	---	PASS
PES1	23481	broad.mit.edu	37	22	30980447	30980447	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:30980447G>A	uc003aij.1	-						PES1_uc003aik.1_Intron|PES1_uc003ail.1_Intron|PES1_uc003aim.1_Intron|PES1_uc003ain.1_Intron|PES1_uc003aio.1_Intron	NM_014303	NP_055118	O00541	PESC_HUMAN	pescadillo homolog 1, containing BRCT domain						cell proliferation|maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|regulation of cell cycle	chromosome|nucleoplasm|PeBoW complex|preribosome, large subunit precursor	protein binding				0						AAGACCTAGGGGAGAGGAGGA	0.622													7	14	---	---	---	---	PASS
SLC35E4	339665	broad.mit.edu	37	22	31043001	31043001	+	Missense_Mutation	SNP	C	T	T	rs148051825		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:31043001C>T	uc003ais.1	+	2	1681	c.1036C>T	c.(1036-1038)CCC>TCC	p.P346S	SLC35E4_uc003ait.2_Intron	NM_001001479	NP_001001479	Q6ICL7	S35E4_HUMAN	solute carrier family 35, member E4	346						integral to membrane					0						GAGGGACCAGCCCAGCAAGGG	0.617													3	17	---	---	---	---	PASS
MORC2	22880	broad.mit.edu	37	22	31324124	31324124	+	Missense_Mutation	SNP	G	A	A	rs142559213	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:31324124G>A	uc003aje.1	-	26	4090	c.2726C>T	c.(2725-2727)TCC>TTC	p.S909F		NM_014941	NP_055756	Q9Y6X9	MORC2_HUMAN	MORC family CW-type zinc finger 2	971	Potential.						ATP binding|zinc ion binding			ovary(1)|pancreas(1)	2						CTTGGCCCGGGAGTCAGCACG	0.577													4	22	---	---	---	---	PASS
PATZ1	23598	broad.mit.edu	37	22	31722996	31722996	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:31722996G>A	uc003akq.2	-	5	2606	c.1945C>T	c.(1945-1947)CCT>TCT	p.P649S	PATZ1_uc003akp.2_3'UTR|PATZ1_uc003akr.2_Missense_Mutation_p.P603S	NM_014323	NP_055138	Q9HBE1	PATZ1_HUMAN	POZ (BTB) and AT hook containing zinc finger 1	649					negative regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding		EWSR1/PATZ1(2)	soft_tissue(2)	2						TTCTGCTGAGGAGAGAAAGGT	0.552													12	49	---	---	---	---	PASS
EIF4ENIF1	56478	broad.mit.edu	37	22	31864273	31864273	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:31864273G>A	uc003akz.1	-	4	350	c.186C>T	c.(184-186)GAC>GAT	p.D62D	EIF4ENIF1_uc003ala.1_Silent_p.D62D|EIF4ENIF1_uc003alb.1_Silent_p.D62D|EIF4ENIF1_uc003alc.1_Silent_p.D62D	NM_019843	NP_062817	Q9NRA8	4ET_HUMAN	eukaryotic translation initiation factor 4E	62						nucleus	protein binding|protein transporter activity			ovary(1)	1						ACTTCTCAGGGTCCCAGACAC	0.498													20	31	---	---	---	---	PASS
RFPL2	10739	broad.mit.edu	37	22	32586779	32586779	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:32586779G>A	uc003amg.3	-	5	2053	c.1117C>T	c.(1117-1119)CGT>TGT	p.R373C	RFPL2_uc003ame.3_Missense_Mutation_p.R312C|RFPL2_uc003amf.3_Missense_Mutation_p.R283C|RFPL2_uc003amh.3_Missense_Mutation_p.R283C	NM_001098527	NP_001091997	O75678	RFPL2_HUMAN	ret finger protein-like 2 isoform 2	373							zinc ion binding			skin(1)	1						TCCCCAGGACGGACTGGAGCA	0.458													41	65	---	---	---	---	PASS
FBXO7	25793	broad.mit.edu	37	22	32894464	32894464	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:32894464C>T	uc003amq.2	+	9	1799	c.1516C>T	c.(1516-1518)CCC>TCC	p.P506S	FBXO7_uc003amr.2_Missense_Mutation_p.P392S|FBXO7_uc003ams.2_Missense_Mutation_p.P350S|FBXO7_uc003amt.2_Missense_Mutation_p.P427S|FBXO7_uc003amu.2_Missense_Mutation_p.P392S|FBXO7_uc003amv.2_Missense_Mutation_p.P205S	NM_012179	NP_036311	Q9Y3I1	FBX7_HUMAN	F-box only protein 7 isoform 1	506					cell death|regulation of protein stability|ubiquitin-dependent protein catabolic process	ubiquitin ligase complex	protein binding|ubiquitin-protein ligase activity			ovary(1)	1						TGACAGATTTCCCTTTAGACC	0.512													14	36	---	---	---	---	PASS
LARGE	9215	broad.mit.edu	37	22	33700276	33700276	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:33700276G>A	uc003and.3	-	13	2248	c.1669C>T	c.(1669-1671)CCC>TCC	p.P557S	LARGE_uc011amd.1_Missense_Mutation_p.P356S|LARGE_uc003ane.3_Missense_Mutation_p.P557S|LARGE_uc010gwp.2_Missense_Mutation_p.P505S|LARGE_uc011ame.1_Missense_Mutation_p.P489S|LARGE_uc011amf.1_Missense_Mutation_p.P557S	NM_004737	NP_004728	O95461	LARGE_HUMAN	like-glycosyltransferase	557	Lumenal (Potential).				glycosphingolipid biosynthetic process|muscle cell homeostasis|N-acetylglucosamine metabolic process|protein glycosylation	integral to Golgi membrane	acetylglucosaminyltransferase activity			ovary(1)|central_nervous_system(1)|skin(1)	3		Lung NSC(1;0.219)				AACATGTAGGGAGTGCTGATG	0.572													13	62	---	---	---	---	PASS
ISX	91464	broad.mit.edu	37	22	35478585	35478585	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:35478585C>T	uc003anj.2	+	2	1255	c.304C>T	c.(304-306)CAC>TAC	p.H102Y	ISX_uc011amg.1_Missense_Mutation_p.H90Y	NM_001008494	NP_001008494	Q2M1V0	ISX_HUMAN	intestine-specific homeobox	102	Homeobox.					nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			ovary(3)|skin(2)	5						GAAGATCTTCCACTTTACCCA	0.577													25	35	---	---	---	---	PASS
HMOX1	3162	broad.mit.edu	37	22	35783130	35783130	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:35783130G>A	uc003ant.1	+	3	677	c.597G>A	c.(595-597)GTG>GTA	p.V199V		NM_002133	NP_002124	P09601	HMOX1_HUMAN	heme oxygenase (decyclizing) 1	199					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)	GGCAGAGGGTGATAGAAGAGG	0.607													18	72	---	---	---	---	PASS
RASD2	23551	broad.mit.edu	37	22	35948035	35948035	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:35948035C>T	uc003anx.2	+	3	962	c.757C>T	c.(757-759)CGG>TGG	p.R253W	RASD2_uc003any.2_Missense_Mutation_p.R253W	NM_014310	NP_055125	Q96D21	RHES_HUMAN	RASD family, member 2 precursor	253					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						CAAGGTCCTTCGGGAAGGCCA	0.657													18	14	---	---	---	---	PASS
APOL5	80831	broad.mit.edu	37	22	36124924	36124924	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:36124924C>T	uc003aof.2	+	4	1281	c.1281C>T	c.(1279-1281)GCC>GCT	p.A427A		NM_030642	NP_085145	Q9BWW9	APOL5_HUMAN	apolipoprotein L5	427					lipid metabolic process|lipid transport|lipoprotein metabolic process	cytoplasm|extracellular region	high-density lipoprotein particle binding|lipid binding|protein binding				0						GGAGACAGGCCCCGGGAAGAC	0.612													15	16	---	---	---	---	PASS
TXN2	25828	broad.mit.edu	37	22	36876893	36876893	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:36876893G>A	uc003apk.1	-						TXN2_uc003apl.1_Intron	NM_012473	NP_036605	Q99757	THIOM_HUMAN	thioredoxin 2 precursor						cell redox homeostasis|electron transport chain|glycerol ether metabolic process|transport	mitochondrion|nucleolus	electron carrier activity				0						ATCTGTGAGGGAAAGAGGCAG	0.542													9	47	---	---	---	---	PASS
IFT27	11020	broad.mit.edu	37	22	37154457	37154457	+	Intron	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:37154457G>T	uc003apv.1	-						IFT27_uc003apu.1_Intron|IFT27_uc003apw.1_3'UTR	NM_006860	NP_006851	Q9BW83	IFT27_HUMAN	RAB, member of RAS oncogene family-like 4						small GTPase mediated signal transduction	intraflagellar transport particle B|microtubule-based flagellum	GTP binding				0						TCTCTTTCTGGAAAGACAGTT	0.483											OREG0026524	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	10	43	---	---	---	---	PASS
CSF2RB	1439	broad.mit.edu	37	22	37322029	37322029	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:37322029G>A	uc003aqa.3	+	4	418	c.201G>A	c.(199-201)GAG>GAA	p.E67E	CSF2RB_uc003aqc.3_Silent_p.E67E	NM_000395	NP_000386	P32927	IL3RB_HUMAN	colony stimulating factor 2 receptor, beta	67	Extracellular (Potential).				respiratory gaseous exchange	granulocyte macrophage colony-stimulating factor receptor complex	cytokine receptor activity			skin(2)|pancreas(1)	3					Sargramostim(DB00020)	CTCCCAACAGGGACCTCCTGG	0.443													6	22	---	---	---	---	PASS
CSF2RB	1439	broad.mit.edu	37	22	37328925	37328925	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:37328925G>A	uc003aqa.3	+	9	1348	c.1131G>A	c.(1129-1131)AGG>AGA	p.R377R	CSF2RB_uc003aqc.3_Silent_p.R383R	NM_000395	NP_000386	P32927	IL3RB_HUMAN	colony stimulating factor 2 receptor, beta	377	Extracellular (Potential).|Fibronectin type-III 2.				respiratory gaseous exchange	granulocyte macrophage colony-stimulating factor receptor complex	cytokine receptor activity			skin(2)|pancreas(1)	3					Sargramostim(DB00020)	TCCAGTACAGGAAAGACACGG	0.557													18	20	---	---	---	---	PASS
CYTH4	27128	broad.mit.edu	37	22	37692055	37692055	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:37692055G>A	uc003arf.2	+	4	299	c.183G>A	c.(181-183)AAG>AAA	p.K61K	CYTH4_uc003ard.3_Silent_p.K61K|CYTH4_uc003are.2_Silent_p.K61K|CYTH4_uc011amw.1_Silent_p.K4K|CYTH4_uc010gxe.2_Intron	NM_013385	NP_037517	Q9UIA0	CYH4_HUMAN	cytohesin 4	61	Potential.|SEC7.				regulation of ARF protein signal transduction|regulation of cell adhesion	cytoplasm|plasma membrane	ARF guanyl-nucleotide exchange factor activity			ovary(2)	2						TGGCCCAGAAGGAGAAGGAGC	0.632													4	11	---	---	---	---	PASS
PDXP	57026	broad.mit.edu	37	22	38055295	38055295	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:38055295C>T	uc003atm.1	+	1	559	c.506C>T	c.(505-507)CCC>CTC	p.P169L	SH3BP1_uc003atj.1_Intron|uc003atl.1_5'Flank	NM_020315	NP_064711	Q96GD0	PLPP_HUMAN	pyridoxal phosphatase	169					actin rod assembly|cellular response to ATP|positive regulation of actin filament depolymerization|protein dephosphorylation|regulation of cytokinesis|regulation of mitosis	cytosol	heat shock protein binding|metal ion binding|phosphoprotein phosphatase activity|pyridoxal phosphatase activity			ovary(2)	2	Melanoma(58;0.0574)				Pyridoxal(DB00147)|Pyridoxal Phosphate(DB00114)|Pyridoxine(DB00165)	CTGCGCGACCCCGAGTGCCTA	0.577													6	3	---	---	---	---	PASS
TRIOBP	11078	broad.mit.edu	37	22	38120911	38120911	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:38120911C>A	uc003atr.2	+	7	2619	c.2348C>A	c.(2347-2349)CCC>CAC	p.P783H	TRIOBP_uc003atu.2_Missense_Mutation_p.P611H|TRIOBP_uc003atq.1_Missense_Mutation_p.P783H|TRIOBP_uc003ats.1_Missense_Mutation_p.P611H	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	783					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)					ACCTCCTCTCCCAATAGAGCC	0.567													5	106	---	---	---	---	PASS
TRIOBP	11078	broad.mit.edu	37	22	38122137	38122137	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:38122137C>T	uc003atr.2	+	7	3845	c.3574C>T	c.(3574-3576)CCT>TCT	p.P1192S	TRIOBP_uc003atu.2_Missense_Mutation_p.P1020S|TRIOBP_uc003atq.1_Missense_Mutation_p.P1192S|TRIOBP_uc003ats.1_Missense_Mutation_p.P1020S	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	1192					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)					CCAGGATCCCCCTGGAACTAG	0.642													8	48	---	---	---	---	PASS
EIF3L	51386	broad.mit.edu	37	22	38273863	38273863	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:38273863C>T	uc003auf.2	+	11	1347	c.1260C>T	c.(1258-1260)TTC>TTT	p.F420F	EIF3L_uc003aue.1_Silent_p.F420F|EIF3L_uc011ann.1_Silent_p.F372F|EIF3L_uc003aug.2_Silent_p.F312F|EIF3L_uc003auh.2_Silent_p.F153F	NM_016091	NP_057175	Q9Y262	EIF3L_HUMAN	eukaryotic translation initiation factor 3	420						eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity			ovary(1)	1						GCCCCAAGTTCCTGTCGCCTG	0.502													22	19	---	---	---	---	PASS
PLA2G6	8398	broad.mit.edu	37	22	38536119	38536119	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:38536119G>A	uc003auy.1	-	5	803	c.667C>T	c.(667-669)CCG>TCG	p.P223S	PLA2G6_uc003auz.1_Missense_Mutation_p.P223S|PLA2G6_uc003ava.1_Missense_Mutation_p.P223S|PLA2G6_uc003avb.2_Missense_Mutation_p.P223S|PLA2G6_uc010gxk.1_RNA|PLA2G6_uc011ano.1_Intron	NM_003560	NP_003551	O60733	PA2G6_HUMAN	phospholipase A2, group VI isoform a	223	ANK 3.				cardiolipin biosynthetic process|cell death|lipid catabolic process	centrosome|membrane				ovary(1)	1	Melanoma(58;0.045)				Quinacrine(DB01103)	AGGTGCAGCGGGGTCAGCCCT	0.587													14	10	---	---	---	---	PASS
DMC1	11144	broad.mit.edu	37	22	38951351	38951351	+	Intron	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:38951351G>T	uc003avz.1	-						DMC1_uc011anv.1_Intron|DMC1_uc003awa.1_Intron	NM_007068	NP_008999	Q14565	DMC1_HUMAN	DMC1 dosage suppressor of mck1 homolog						reciprocal meiotic recombination	condensed nuclear chromosome	ATP binding|DNA binding|DNA-dependent ATPase activity|protein binding			ovary(1)	1	Melanoma(58;0.0286)					AAATATTAAGGTTCTACCTAC	0.224								Homologous_recombination					18	13	---	---	---	---	PASS
CACNA1I	8911	broad.mit.edu	37	22	39966849	39966849	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:39966849C>T	uc003ayc.2	+	1	92	c.92C>T	c.(91-93)CCC>CTC	p.P31L	CACNA1I_uc003ayd.2_Missense_Mutation_p.P31L	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	31	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)	CCCCGGAGCCCCCCATCCTCC	0.677													13	12	---	---	---	---	PASS
CACNA1I	8911	broad.mit.edu	37	22	39966850	39966850	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:39966850C>T	uc003ayc.2	+	1	93	c.93C>T	c.(91-93)CCC>CCT	p.P31P	CACNA1I_uc003ayd.2_Silent_p.P31P	NM_021096	NP_066919	Q9P0X4	CAC1I_HUMAN	calcium channel, voltage-dependent, T type,	31	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)	CCCGGAGCCCCCCATCCTCCC	0.677													14	13	---	---	---	---	PASS
MKL1	57591	broad.mit.edu	37	22	40819620	40819620	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:40819620G>A	uc003ayv.1	-	6	754	c.547C>T	c.(547-549)CCT>TCT	p.P183S	MKL1_uc003ayw.1_Missense_Mutation_p.P183S|MKL1_uc010gye.1_Missense_Mutation_p.P183S|MKL1_uc010gyf.1_Intron	NM_020831	NP_065882	Q969V6	MKL1_HUMAN	megakaryoblastic leukemia 1 protein	183	Mediates interaction with SCAI and ACTB (By similarity).				positive regulation of transcription from RNA polymerase II promoter|smooth muscle cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	actin monomer binding|leucine zipper domain binding|nucleic acid binding|transcription coactivator activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						GGTGGGGGAGGCAGAGGAGGC	0.552			T	RBM15	acute megakaryocytic leukemia								5	33	---	---	---	---	PASS
MKL1	57591	broad.mit.edu	37	22	40820341	40820341	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:40820341C>T	uc003ayv.1	-	5	553	c.346G>A	c.(346-348)GAT>AAT	p.D116N	MKL1_uc003ayw.1_Missense_Mutation_p.D116N|MKL1_uc010gye.1_Missense_Mutation_p.D116N|MKL1_uc010gyf.1_Missense_Mutation_p.D116N	NM_020831	NP_065882	Q969V6	MKL1_HUMAN	megakaryoblastic leukemia 1 protein	116	Mediates interaction with SCAI and ACTB (By similarity).				positive regulation of transcription from RNA polymerase II promoter|smooth muscle cell differentiation|transcription, DNA-dependent	cytoplasm|nucleus	actin monomer binding|leucine zipper domain binding|nucleic acid binding|transcription coactivator activity			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						CTGTCCTCATCGAAGGAAGAG	0.587			T	RBM15	acute megakaryocytic leukemia								25	20	---	---	---	---	PASS
MCHR1	2847	broad.mit.edu	37	22	41077494	41077494	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:41077494C>T	uc003ayz.2	+	2	1099	c.831C>T	c.(829-831)TTC>TTT	p.F277F	MCHR1_uc003aza.2_Silent_p.F166F	NM_005297	NP_005288	Q99705	MCHR1_HUMAN	G protein-coupled receptor 24	277	Extracellular (Potential).				elevation of cytosolic calcium ion concentration|feeding behavior|generation of precursor metabolites and energy|inhibition of adenylate cyclase activity by G-protein signaling pathway	integral to plasma membrane|nonmotile primary cilium	neuropeptide receptor activity				0						TCTACTGGTTCACCCTGTACC	0.602													34	29	---	---	---	---	PASS
EP300	2033	broad.mit.edu	37	22	41572364	41572364	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:41572364C>T	uc003azl.3	+	30	5288	c.4893C>T	c.(4891-4893)CTC>CTT	p.L1631L		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	1631	Binding region for E1A adenovirus.				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						ATGCGTTTCTCACGCTGGCAA	0.597			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				38	46	---	---	---	---	PASS
EP300	2033	broad.mit.edu	37	22	41574204	41574204	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:41574204C>T	uc003azl.3	+	31	6884	c.6489C>T	c.(6487-6489)CCC>CCT	p.P2163P		NM_001429	NP_001420	Q09472	EP300_HUMAN	E1A binding protein p300	2163	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						GGATGAGCCCCCAGGCTCAGC	0.567			T| N|F|Mis|O	MLL|RUNXBP2	colorectal|breast|pancreatic|AML|ALL|DLBCL				Rubinstein-Taybi_syndrome				30	31	---	---	---	---	PASS
PMM1	5372	broad.mit.edu	37	22	41980521	41980521	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:41980521G>A	uc003bal.2	-							NM_002676	NP_002667	Q92871	PMM1_HUMAN	phosphomannomutase 1						dolichol-linked oligosaccharide biosynthetic process|GDP-mannose biosynthetic process|post-translational protein modification|protein N-linked glycosylation via asparagine	cytosol	metal ion binding|phosphomannomutase activity			ovary(1)	1						AAGCCCTGGGGGACACTGACC	0.567													30	40	---	---	---	---	PASS
MEI1	150365	broad.mit.edu	37	22	42166870	42166870	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:42166870G>A	uc003baz.1	+	20	2474	c.2449G>A	c.(2449-2451)GAT>AAT	p.D817N	WBP2NL_uc011ape.1_Intron|LOC339674_uc003bba.1_Intron|MEI1_uc011apd.1_RNA|MEI1_uc003bbb.1_Missense_Mutation_p.D203N|MEI1_uc003bbc.1_Missense_Mutation_p.D185N|MEI1_uc010gym.1_Missense_Mutation_p.D185N|MEI1_uc003bbd.1_Missense_Mutation_p.D60N	NM_152513	NP_689726	Q5TIA1	MEI1_HUMAN	meiosis defective 1	817							binding			central_nervous_system(1)|skin(1)	2						GGAACTGGATGATGTCACCTC	0.537													23	74	---	---	---	---	PASS
SEPT3	55964	broad.mit.edu	37	22	42383207	42383207	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:42383207C>T	uc003bbr.3	+						WBP2NL_uc011ape.1_Intron|SEPT3_uc003bbs.3_Intron|SEPT3_uc010gyr.2_Intron|SEPT3_uc011apj.1_Intron|SEPT3_uc010gys.2_Intron	NM_145733	NP_663786	Q9UH03	SEPT3_HUMAN	septin 3 isoform A						cell cycle|cytokinesis	cell junction|septin complex	GTP binding				0						TTTTCACCCCCAGTGATAGAG	0.522													4	28	---	---	---	---	PASS
SEPT3	55964	broad.mit.edu	37	22	42388703	42388703	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:42388703C>T	uc003bbr.3	+	8	939	c.801C>T	c.(799-801)GAC>GAT	p.D267D	WBP2NL_uc011ape.1_Intron|SEPT3_uc003bbs.3_Silent_p.D267D|SEPT3_uc010gyr.2_Silent_p.D203D|SEPT3_uc011apj.1_Silent_p.D203D|SEPT3_uc010gys.2_Silent_p.D47D	NM_145733	NP_663786	Q9UH03	SEPT3_HUMAN	septin 3 isoform A	267					cell cycle|cytokinesis	cell junction|septin complex	GTP binding				0						TGGGAAGTGACAAGGAGTACC	0.522													13	9	---	---	---	---	PASS
FAM109B	150368	broad.mit.edu	37	22	42473757	42473757	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:42473757G>T	uc003bbz.2	+	3	647	c.460G>T	c.(460-462)GCC>TCC	p.A154S	C22orf32_uc003bca.2_5'Flank	NM_001002034	NP_001002034	Q6ICB4	SESQ2_HUMAN	hypothetical protein LOC150368	154					endosome organization|receptor recycling|retrograde transport, endosome to Golgi	clathrin-coated vesicle|early endosome|recycling endosome|trans-Golgi network	protein homodimerization activity				0						GAAGTCTGTTGCCAGCCGCTG	0.622													5	35	---	---	---	---	PASS
CYB5R3	1727	broad.mit.edu	37	22	43024195	43024195	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:43024195G>A	uc003bcz.2	-	5	510	c.426C>T	c.(424-426)TTC>TTT	p.F142F	CYB5R3_uc010gzc.1_Silent_p.F16F|CYB5R3_uc003bcw.2_Silent_p.F132F|CYB5R3_uc011aps.1_Silent_p.F175F|CYB5R3_uc003bcy.2_Silent_p.F119F|CYB5R3_uc003bcx.2_Silent_p.F119F	NM_000398	NP_000389	P00387	NB5R3_HUMAN	cytochrome b5 reductase 3 isoform m	142	FAD (By similarity).|FAD-binding FR-type.				blood circulation|cholesterol biosynthetic process|water-soluble vitamin metabolic process	endoplasmic reticulum membrane|hemoglobin complex|mitochondrial outer membrane	cytochrome-b5 reductase activity			skin(1)	1					NADH(DB00157)	TGGGGCCCCGGAACTCAATGG	0.562													87	70	---	---	---	---	PASS
TTLL12	23170	broad.mit.edu	37	22	43570628	43570628	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:43570628G>A	uc003bdq.2	-						TTLL12_uc003bdr.1_Intron	NM_015140	NP_055955	Q14166	TTL12_HUMAN	tubulin tyrosine ligase-like family, member 12						protein modification process		tubulin-tyrosine ligase activity			central_nervous_system(1)	1		Ovarian(80;0.221)|Glioma(61;0.222)				GACCCTGTGGGGAGAGCCCGA	0.627													18	13	---	---	---	---	PASS
PARVB	29780	broad.mit.edu	37	22	44489902	44489902	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:44489902G>A	uc003ben.2	+						PARVB_uc003bem.2_Intron|PARVB_uc010gzn.2_Intron|PARVB_uc003beo.2_Intron	NM_013327	NP_037459	Q9HBI1	PARVB_HUMAN	parvin, beta isoform b						cell adhesion|cell junction assembly	cytoskeleton|cytosol|focal adhesion	actin binding				0		Ovarian(80;0.0246)|all_neural(38;0.0423)				AGCTTGGTACGGGGGTTCCTC	0.577													20	44	---	---	---	---	PASS
PARVB	29780	broad.mit.edu	37	22	44489903	44489903	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:44489903G>A	uc003ben.2	+						PARVB_uc003bem.2_Intron|PARVB_uc010gzn.2_Intron|PARVB_uc003beo.2_Intron	NM_013327	NP_037459	Q9HBI1	PARVB_HUMAN	parvin, beta isoform b						cell adhesion|cell junction assembly	cytoskeleton|cytosol|focal adhesion	actin binding				0		Ovarian(80;0.0246)|all_neural(38;0.0423)				GCTTGGTACGGGGGTTCCTCC	0.577													19	42	---	---	---	---	PASS
PHF21B	112885	broad.mit.edu	37	22	45278957	45278957	+	3'UTR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:45278957C>T	uc003bfn.2	-	13					PHF21B_uc003bfm.2_3'UTR|PHF21B_uc011aqk.1_3'UTR|PHF21B_uc011aql.1_3'UTR	NM_138415	NP_612424	Q96EK2	PF21B_HUMAN	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)		GAAGACTGGTCCCTCGGGGTC	0.582													24	47	---	---	---	---	PASS
PHF21B	112885	broad.mit.edu	37	22	45291902	45291902	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:45291902C>T	uc003bfn.2	-						PHF21B_uc003bfm.2_Intron|PHF21B_uc011aqk.1_Intron|PHF21B_uc011aql.1_Intron|PHF21B_uc011aqm.1_Intron	NM_138415	NP_612424	Q96EK2	PF21B_HUMAN	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)		CTACCTGGATCCTTCCTTACC	0.557													69	78	---	---	---	---	PASS
SMC1B	27127	broad.mit.edu	37	22	45789578	45789578	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:45789578C>T	uc003bgc.2	-	9	1533	c.1481G>A	c.(1480-1482)GGA>GAA	p.G494E	SMC1B_uc003bgd.2_Missense_Mutation_p.G494E|SMC1B_uc003bge.1_Missense_Mutation_p.G277E	NM_148674	NP_683515	Q8NDV3	SMC1B_HUMAN	SMC1 structural maintenance of chromosomes	494	Flexible hinge.				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)		CTGACGTTTTCCCTCATGGGT	0.328													16	26	---	---	---	---	PASS
ATXN10	25814	broad.mit.edu	37	22	46136353	46136353	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:46136353T>C	uc003bgm.1	+	9	1365	c.1108T>C	c.(1108-1110)TTT>CTT	p.F370L	ATXN10_uc011aqt.1_Missense_Mutation_p.F306L|ATXN10_uc003bgn.1_Missense_Mutation_p.F181L	NM_013236	NP_037368	Q9UBB4	ATX10_HUMAN	ataxin 10	370					cell death|neuron projection development	dendrite|neuronal cell body|perinuclear region of cytoplasm				ovary(1)|kidney(1)	2		Ovarian(80;0.00973)|all_neural(38;0.0417)		UCEC - Uterine corpus endometrioid carcinoma (28;0.0223)		GGCCAATGGGTTTAAGTCTCA	0.383													15	52	---	---	---	---	PASS
PKDREJ	10343	broad.mit.edu	37	22	46656603	46656603	+	Nonsense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:46656603G>A	uc003bhh.2	-	1	2617	c.2617C>T	c.(2617-2619)CAG>TAG	p.Q873*		NM_006071	NP_006062	Q9NTG1	PKDRE_HUMAN	receptor for egg jelly-like protein precursor	873	Extracellular (Potential).|REJ.				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)		CTGAAGAGCTGGTTGATACCC	0.408													22	36	---	---	---	---	PASS
GTSE1	51512	broad.mit.edu	37	22	46708110	46708110	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:46708110C>T	uc011aqy.1	+	5	1047	c.835C>T	c.(835-837)CTC>TTC	p.L279F	GTSE1_uc011aqz.1_Missense_Mutation_p.L126F	NM_016426	NP_057510	Q9NYZ3	GTSE1_HUMAN	G-2 and S-phase expressed 1	260					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)		CCGGGATGTTCTCCCTGACAA	0.537													13	29	---	---	---	---	PASS
GTSE1	51512	broad.mit.edu	37	22	46725379	46725379	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:46725379C>T	uc011aqy.1	+	11	2263	c.2051C>T	c.(2050-2052)TCT>TTT	p.S684F	GTSE1_uc011aqz.1_Missense_Mutation_p.S531F|GTSE1_uc003bhn.2_RNA|uc011ara.1_5'Flank|uc003bho.3_5'Flank	NM_016426	NP_057510	Q9NYZ3	GTSE1_HUMAN	G-2 and S-phase expressed 1	665					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)		GCTGTAGGATCTGAAAGCAGG	0.542													72	62	---	---	---	---	PASS
CELSR1	9620	broad.mit.edu	37	22	46930004	46930004	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:46930004G>A	uc003bhw.1	-	1	3064	c.3064C>T	c.(3064-3066)CGT>TGT	p.R1022C		NM_014246	NP_055061	Q9NYQ6	CELR1_HUMAN	cadherin EGF LAG seven-pass G-type receptor 1	1022	Extracellular (Potential).|Cadherin 8.				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)		TCGTTAGCACGAATCTTTGCC	0.517													19	33	---	---	---	---	PASS
GRAMD4	23151	broad.mit.edu	37	22	47033853	47033853	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:47033853C>T	uc003bhx.2	+	2	318	c.279C>T	c.(277-279)TTC>TTT	p.F93F	GRAMD4_uc010had.2_Silent_p.F32F	NM_015124	NP_055939	Q6IC98	GRAM4_HUMAN	death-inducing-protein	93	Potential.				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)		AAAAACATTTCTTACGTGAGT	0.517													16	66	---	---	---	---	PASS
ZBED4	9889	broad.mit.edu	37	22	50278157	50278157	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:50278157G>A	uc003bix.2	+	2	1317	c.847G>A	c.(847-849)GGG>AGG	p.G283R		NM_014838	NP_055653	O75132	ZBED4_HUMAN	zinc finger, BED-type containing 4	283						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)		GAGCACCTCTGGGTCCAGGAG	0.572													58	53	---	---	---	---	PASS
SBF1	6305	broad.mit.edu	37	22	50893807	50893807	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:50893807G>A	uc003blh.2	-	33	4595	c.4400C>T	c.(4399-4401)CCC>CTC	p.P1467L	SBF1_uc003ble.2_5'UTR|SBF1_uc003blf.2_5'UTR|SBF1_uc011arx.1_Missense_Mutation_p.P1105L	NM_002972	NP_002963	O95248	MTMR5_HUMAN	SET binding factor 1	1441	Myotubularin phosphatase.				protein dephosphorylation	integral to membrane|nucleus	protein tyrosine/serine/threonine phosphatase activity				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;0.206)|LUAD - Lung adenocarcinoma(64;0.247)		GCGGTAGAAGGGGTCTGAGAG	0.687													25	26	---	---	---	---	PASS
NCAPH2	29781	broad.mit.edu	37	22	50956661	50956661	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:50956661C>T	uc003blr.3	+	7	722	c.600C>T	c.(598-600)TCC>TCT	p.S200S	NCAPH2_uc003blq.3_Silent_p.S200S|NCAPH2_uc003blv.2_Silent_p.S200S|NCAPH2_uc010hbb.2_Silent_p.S51S|NCAPH2_uc003blu.3_RNA|NCAPH2_uc003bls.3_RNA|NCAPH2_uc003blt.3_RNA|NCAPH2_uc003blw.3_RNA|NCAPH2_uc003blx.3_Silent_p.S200S|NCAPH2_uc003bly.3_RNA	NM_152299	NP_689512	Q6IBW4	CNDH2_HUMAN	kleisin beta isoform 2	200					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)		AGGGCATGTCCCCCATGGAAC	0.642													24	24	---	---	---	---	PASS
NCAPH2	29781	broad.mit.edu	37	22	50956662	50956662	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:50956662C>T	uc003blr.3	+	7	723	c.601C>T	c.(601-603)CCC>TCC	p.P201S	NCAPH2_uc003blq.3_Missense_Mutation_p.P201S|NCAPH2_uc003blv.2_Missense_Mutation_p.P201S|NCAPH2_uc010hbb.2_Missense_Mutation_p.P52S|NCAPH2_uc003blu.3_RNA|NCAPH2_uc003bls.3_RNA|NCAPH2_uc003blt.3_RNA|NCAPH2_uc003blw.3_RNA|NCAPH2_uc003blx.3_Missense_Mutation_p.P201S|NCAPH2_uc003bly.3_RNA	NM_152299	NP_689512	Q6IBW4	CNDH2_HUMAN	kleisin beta isoform 2	201					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)		GGGCATGTCCCCCATGGAACC	0.642													35	13	---	---	---	---	PASS
MAPK8IP2	23542	broad.mit.edu	37	22	51040209	51040209	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:51040209C>T	uc003bmx.2	+						MAPK8IP2_uc003bmy.2_5'Flank	NM_012324	NP_036456	Q13387	JIP2_HUMAN	mitogen-activated protein kinase 8 interacting						behavioral fear response|dendrite morphogenesis|MAPKKK cascade|nonassociative learning|positive regulation of anti-apoptosis|regulation of excitatory postsynaptic membrane potential|regulation of JNK cascade|regulation of receptor activity|regulation of synaptic transmission, glutamatergic|signal complex assembly|social behavior	cytoplasm|postsynaptic density	beta-amyloid binding|kinesin binding|MAP-kinase scaffold activity|protein kinase activator activity|protein kinase binding			large_intestine(2)|central_nervous_system(1)	3		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)		OV - Ovarian serous cystadenocarcinoma(4;1.28e-70)|Epithelial(4;3.46e-65)|GBM - Glioblastoma multiforme(4;4.83e-06)|Lung(4;0.125)|BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)		ACCCTGGTCTCCTTTCCAGGC	0.597													29	29	---	---	---	---	PASS
ARSA	410	broad.mit.edu	37	22	51065164	51065164	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:51065164C>T	uc003bnb.3	-	5	956	c.703G>A	c.(703-705)GGG>AGG	p.G235R	ARSA_uc003bna.3_Missense_Mutation_p.G151R|ARSA_uc003bnc.3_Missense_Mutation_p.G235R|ARSA_uc003bnd.3_Missense_Mutation_p.G235R|ARSA_uc003bmz.3_Missense_Mutation_p.G235R|ARSA_uc010hbf.2_3'UTR	NM_001085426	NP_001078895	P15289	ARSA_HUMAN	arylsulfatase A isoform a precursor	235						lysosome	arylsulfatase activity|calcium ion binding|cerebroside-sulfatase activity			pancreas(1)|skin(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)		BRCA - Breast invasive adenocarcinoma(115;0.205)|LUAD - Lung adenocarcinoma(64;0.247)	Micafungin(DB01141)	AAGCTCTGCCCACTGAACTGA	0.617													16	51	---	---	---	---	PASS
PLCXD1	55344	broad.mit.edu	37	X	215781	215781	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:215781G>A	uc004cpc.2	+	7	1063	c.751G>A	c.(751-753)GGC>AGC	p.G251S	PLCXD1_uc011mgx.1_RNA	NM_018390	NP_060860	Q9NUJ7	PLCX1_HUMAN	phosphatidylinositol-specific phospholipase C, X	251					intracellular signal transduction|lipid metabolic process		phospholipase C 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)				GTTCGTGGCCGGCATCAACCT	0.617													14	13	---	---	---	---	PASS
PLCXD1	55344	broad.mit.edu	37	X	215782	215782	+	Missense_Mutation	SNP	G	A	A	rs145500475		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:215782G>A	uc004cpc.2	+	7	1064	c.752G>A	c.(751-753)GGC>GAC	p.G251D	PLCXD1_uc011mgx.1_RNA	NM_018390	NP_060860	Q9NUJ7	PLCX1_HUMAN	phosphatidylinositol-specific phospholipase C, X	251					intracellular signal transduction|lipid metabolic process		phospholipase C 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)				TTCGTGGCCGGCATCAACCTC	0.622													15	12	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	X	228243	228243	+	5'UTR	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:228243C>A	uc004cpd.1	-	1					uc004cpe.1_Missense_Mutation_p.R94L	NM_012227	NP_036359			pseudoautosomal GTP-binding protein-like																		CAGCTGGTCCCGTGGCTGGAT	0.662													4	29	---	---	---	---	PASS
CRLF2	64109	broad.mit.edu	37	X	1321372	1321372	+	RNA	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:1321372G>A	uc004cpm.1	-	4		c.383C>T						Q9HC73	CRLF2_HUMAN	Homo sapiens mRNA for IL-XR, complete cds.							extracellular region|integral to membrane|plasma membrane	receptor activity			haematopoietic_and_lymphoid_tissue(7)	7		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)				CTGATGCCACGAAAATCTCAC	0.547			Mis|T	P2RY8|IGH@	B-ALL|Downs associated ALL								59	122	---	---	---	---	PASS
ASMTL	8623	broad.mit.edu	37	X	1531735	1531735	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:1531735C>A	uc004cpx.1	-	12	1646	c.1535G>T	c.(1534-1536)AGG>ATG	p.R512M	NCRNA00105_uc004cpv.2_RNA|NCRNA00105_uc004cpw.2_RNA|ASMTL_uc011mhe.1_Missense_Mutation_p.R436M|ASMTL_uc004cpy.1_Missense_Mutation_p.R496M|ASMTL_uc011mhf.1_Missense_Mutation_p.R454M	NM_004192	NP_004183	O95671	ASML_HUMAN	acetylserotonin O-methyltransferase-like	512	ASMT-like.				melatonin biosynthetic process	cytoplasm	acetylserotonin O-methyltransferase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GAGGGGGTCCCTGAAAAAGTC	0.582													5	94	---	---	---	---	PASS
ASMTL	8623	broad.mit.edu	37	X	1536906	1536906	+	Silent	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:1536906T>C	uc004cpx.1	-	11	1593	c.1482A>G	c.(1480-1482)CAA>CAG	p.Q494Q	ASMTL_uc011mhe.1_Silent_p.Q418Q|ASMTL_uc004cpy.1_Silent_p.Q478Q|ASMTL_uc011mhf.1_Silent_p.Q436Q	NM_004192	NP_004183	O95671	ASML_HUMAN	acetylserotonin O-methyltransferase-like	494	ASMT-like.				melatonin biosynthetic process	cytoplasm	acetylserotonin O-methyltransferase activity				0		all_cancers(21;4.28e-07)|all_epithelial(21;2.07e-08)|all_lung(23;2.81e-05)|Lung NSC(23;0.000693)|Lung SC(21;0.122)				GTCCGGGGGGTTGGAAGTGGG	0.602													10	27	---	---	---	---	PASS
ZBED1	9189	broad.mit.edu	37	X	2408485	2408485	+	Silent	SNP	G	T	T	rs143939578		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:2408485G>T	uc004cqg.2	-	2	477	c.276C>A	c.(274-276)ACC>ACA	p.T92T	DHRSX_uc004cqf.3_Intron|ZBED1_uc004cqh.1_Silent_p.T92T	NM_004729	NP_004720	O96006	ZBED1_HUMAN	zinc finger, BED-type containing 1	92						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)				TGGAGAAGGCGGTGGCGAAGG	0.632													4	55	---	---	---	---	PASS
ZBED1	9189	broad.mit.edu	37	X	2408626	2408626	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:2408626G>A	uc004cqg.2	-	2	336	c.135C>T	c.(133-135)ATC>ATT	p.I45I	DHRSX_uc004cqf.3_Intron|ZBED1_uc004cqh.1_Silent_p.I45I	NM_004729	NP_004720	O96006	ZBED1_HUMAN	zinc finger, BED-type containing 1	45	BED-type.					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)				TGCGGCAGTAGATTTTCTTCC	0.582													28	44	---	---	---	---	PASS
ARSF	416	broad.mit.edu	37	X	3021844	3021844	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:3021844C>T	uc004cre.1	+	9	1365	c.1144C>T	c.(1144-1146)CCA>TCA	p.P382S	ARSF_uc004crf.1_Missense_Mutation_p.P382S	NM_004042	NP_004033	P54793	ARSF_HUMAN	arylsulfatase F precursor	382						extracellular region	arylsulfatase activity|metal ion binding			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)				AATCCGCGTCCCAGGAATTGT	0.448													15	4	---	---	---	---	PASS
NLGN4X	57502	broad.mit.edu	37	X	5811208	5811208	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:5811208C>T	uc010ndh.2	-	6	2602	c.2101G>A	c.(2101-2103)GAC>AAC	p.D701N	NLGN4X_uc004crp.2_Missense_Mutation_p.D721N|NLGN4X_uc004crq.2_Missense_Mutation_p.D701N|NLGN4X_uc010ndi.2_Missense_Mutation_p.D738N|NLGN4X_uc004crr.2_Missense_Mutation_p.D701N|NLGN4X_uc010ndj.2_Missense_Mutation_p.D701N	NM_181332	NP_851849	Q8N0W4	NLGNX_HUMAN	X-linked neuroligin 4 precursor	701	Cytoplasmic (Potential).				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						CGCCTCTTGTCCTTTTTGTAG	0.507													19	13	---	---	---	---	PASS
PRPS2	5634	broad.mit.edu	37	X	12817321	12817321	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:12817321C>T	uc004cvb.2	+						PRPS2_uc004cva.2_Intron|PRPS2_uc010nec.2_5'Flank	NM_002765	NP_002756	P11908	PRPS2_HUMAN	phosphoribosyl pyrophosphate synthetase 2						nucleoside metabolic process|ribonucleoside monophosphate biosynthetic process		ATP binding|kinase activity|magnesium ion binding|protein homodimerization activity|ribose phosphate diphosphokinase activity				0						GTTTTCTTTTCCTAGCGTGGA	0.333													19	12	---	---	---	---	PASS
GLRA2	2742	broad.mit.edu	37	X	14625263	14625263	+	Silent	SNP	G	A	A	rs113271440		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:14625263G>A	uc010nep.2	+	7	920	c.588G>A	c.(586-588)ACG>ACA	p.T196T	GLRA2_uc010neq.2_Silent_p.T196T|GLRA2_uc004cwe.3_Silent_p.T196T|GLRA2_uc011mio.1_Silent_p.T107T|GLRA2_uc011mip.1_Silent_p.T174T	NM_001118885	NP_001112357	P23416	GLRA2_HUMAN	glycine receptor, alpha 2 isoform A	196	Extracellular (Probable).				neuropeptide signaling pathway	cell junction|chloride channel complex|integral to plasma membrane|postsynaptic membrane	extracellular-glycine-gated chloride channel activity|glycine binding|receptor activity|transmitter-gated ion channel activity			ovary(1)|lung(1)	2	Hepatocellular(33;0.128)				Ethanol(DB00898)|Glycine(DB00145)	TTGGGTACACGATGAATGACC	0.388													35	15	---	---	---	---	PASS
MOSPD2	158747	broad.mit.edu	37	X	14933878	14933878	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:14933878C>T	uc004cwi.2	+	12	1266	c.1178C>T	c.(1177-1179)CCC>CTC	p.P393L	MOSPD2_uc004cwj.2_Missense_Mutation_p.P330L	NM_152581	NP_689794	Q8NHP6	MSPD2_HUMAN	motile sperm domain containing 2	393	MSP.					integral to membrane	structural molecule activity			lung(1)	1	Hepatocellular(33;0.183)					GTTGTGTCTCCCCATGGGGGT	0.517													52	20	---	---	---	---	PASS
FIGF	2277	broad.mit.edu	37	X	15364280	15364280	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:15364280C>T	uc004cwt.1	-	7	1549	c.1040G>A	c.(1039-1041)GGG>GAG	p.G347E		NM_004469	NP_004460	O43915	VEGFD_HUMAN	vascular endothelial growth factor D	347					angiogenesis|cell differentiation|induction of positive chemotaxis|platelet activation|platelet degranulation|positive regulation of cell division|positive regulation of cell proliferation|positive regulation of mast cell chemotaxis|vascular endothelial growth factor receptor signaling pathway	extracellular space|membrane|platelet alpha granule lumen	chemoattractant activity|growth factor activity|platelet-derived growth factor receptor binding			ovary(1)|breast(1)|central_nervous_system(1)	3	Hepatocellular(33;0.183)					GCTGTGGGGCCCCTGGGCAGC	0.498													37	19	---	---	---	---	PASS
CNKSR2	22866	broad.mit.edu	37	X	21549974	21549974	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:21549974G>A	uc004czx.1	+	11	1128	c.1092G>A	c.(1090-1092)AGG>AGA	p.R364R	CNKSR2_uc004czw.2_Silent_p.R364R|CNKSR2_uc011mjn.1_Silent_p.R315R|CNKSR2_uc011mjo.1_Silent_p.R364R|CNKSR2_uc004czy.2_5'UTR	NM_014927	NP_055742	Q8WXI2	CNKR2_HUMAN	connector enhancer of kinase suppressor of Ras	364	DUF1170.				regulation of signal transduction	cytoplasm|membrane	protein binding			large_intestine(1)|lung(1)	2						CTTTCTTTAGGGATGAAAAAG	0.373													7	9	---	---	---	---	PASS
PTCHD1	139411	broad.mit.edu	37	X	23398342	23398342	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:23398342T>C	uc004dal.3	+	2	994	c.986T>C	c.(985-987)TTC>TCC	p.F329S	PTCHD1_uc010nfu.1_Missense_Mutation_p.F329S	NM_173495	NP_775766	Q96NR3	PTHD1_HUMAN	patched domain containing 1	329	Helical; (Potential).|SSD.				cognition|smoothened signaling pathway	integral to membrane|plasma membrane	hedgehog receptor activity			ovary(4)|kidney(1)|skin(1)	6						AATTCCACCTTCCTGGGAGTC	0.502													32	23	---	---	---	---	PASS
POLA1	5422	broad.mit.edu	37	X	24741283	24741283	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:24741283C>T	uc004dbl.2	+	11	1104	c.1081C>T	c.(1081-1083)CTG>TTG	p.L361L	POLA1_uc004dbm.2_Silent_p.L367L|POLA1_uc004dbn.2_Silent_p.L225L	NM_016937	NP_058633	P09884	DPOLA_HUMAN	DNA-directed DNA polymerase alpha 1	361					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)	TGTGGTATTTCTGTTTGGGAA	0.393													28	23	---	---	---	---	PASS
MAGEB18	286514	broad.mit.edu	37	X	26157987	26157987	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:26157987C>T	uc004dbq.1	+	2	1072	c.885C>T	c.(883-885)GTC>GTT	p.V295V		NM_173699	NP_775970	Q96M61	MAGBI_HUMAN	melanoma antigen family B, 18	295	MAGE.						protein binding			central_nervous_system(1)	1						ATGATACCGTCCCTAGTGCCT	0.522													15	8	---	---	---	---	PASS
CXorf21	80231	broad.mit.edu	37	X	30578032	30578032	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:30578032C>T	uc004dcg.1	-	3	717	c.441G>A	c.(439-441)GAG>GAA	p.E147E		NM_025159	NP_079435	Q9HAI6	CX021_HUMAN	hypothetical protein LOC80231	147										ovary(1)	1						CAAAACTGCTCTCAGAGGGAA	0.423													16	10	---	---	---	---	PASS
DMD	1756	broad.mit.edu	37	X	31893359	31893359	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:31893359C>T	uc004dda.1	-	48	7288	c.7044G>A	c.(7042-7044)AGG>AGA	p.R2348R	DMD_uc004dcr.1_5'UTR|DMD_uc004dcs.1_5'UTR|DMD_uc004dct.1_5'UTR|DMD_uc004dcu.1_5'UTR|DMD_uc004dcv.1_5'UTR|DMD_uc004dcw.2_Silent_p.R1004R|DMD_uc004dcx.2_Silent_p.R1007R|DMD_uc004dcz.2_Silent_p.R2225R|DMD_uc004dcy.1_Silent_p.R2344R|DMD_uc004ddb.1_Silent_p.R2340R|DMD_uc010ngn.1_RNA	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2348			Missing (in DMD).		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)				CCAACTGATTCCTAATAGGAG	0.338													4	2	---	---	---	---	PASS
DMD	1756	broad.mit.edu	37	X	31893360	31893360	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:31893360C>T	uc004dda.1	-	48	7287	c.7043G>A	c.(7042-7044)AGG>AAG	p.R2348K	DMD_uc004dcr.1_5'UTR|DMD_uc004dcs.1_5'UTR|DMD_uc004dct.1_5'UTR|DMD_uc004dcu.1_5'UTR|DMD_uc004dcv.1_5'UTR|DMD_uc004dcw.2_Missense_Mutation_p.R1004K|DMD_uc004dcx.2_Missense_Mutation_p.R1007K|DMD_uc004dcz.2_Missense_Mutation_p.R2225K|DMD_uc004dcy.1_Missense_Mutation_p.R2344K|DMD_uc004ddb.1_Missense_Mutation_p.R2340K|DMD_uc010ngn.1_RNA	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2348			Missing (in DMD).		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)				CAACTGATTCCTAATAGGAGA	0.343													4	3	---	---	---	---	PASS
DMD	1756	broad.mit.edu	37	X	31893406	31893406	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:31893406G>A	uc004dda.1	-	48	7241	c.6997C>T	c.(6997-6999)CTT>TTT	p.L2333F	DMD_uc004dcr.1_5'UTR|DMD_uc004dcs.1_5'UTR|DMD_uc004dct.1_5'UTR|DMD_uc004dcu.1_5'UTR|DMD_uc004dcv.1_5'UTR|DMD_uc004dcw.2_Missense_Mutation_p.L989F|DMD_uc004dcx.2_Missense_Mutation_p.L992F|DMD_uc004dcz.2_Missense_Mutation_p.L2210F|DMD_uc004dcy.1_Missense_Mutation_p.L2329F|DMD_uc004ddb.1_Missense_Mutation_p.L2325F|DMD_uc010ngn.1_RNA	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	2333			Missing (in DMD).		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)				TGCTCTTCAAGGTCTTCAAGC	0.378													6	3	---	---	---	---	PASS
DMD	1756	broad.mit.edu	37	X	32404508	32404508	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:32404508C>T	uc004dda.1	-	33	4837	c.4593G>A	c.(4591-4593)CAG>CAA	p.Q1531Q	DMD_uc004dcw.2_Silent_p.Q187Q|DMD_uc004dcx.2_Silent_p.Q190Q|DMD_uc004dcz.2_Silent_p.Q1408Q|DMD_uc004dcy.1_Silent_p.Q1527Q|DMD_uc004ddb.1_Silent_p.Q1523Q|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1531	Spectrin 10.|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)				TCTGCTTTTTCTGTACAATCT	0.373													37	16	---	---	---	---	PASS
DMD	1756	broad.mit.edu	37	X	32429976	32429976	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:32429976C>T	uc004dda.1	-	30	4370	c.4126G>A	c.(4126-4128)GAA>AAA	p.E1376K	DMD_uc004dcw.2_Missense_Mutation_p.E32K|DMD_uc004dcx.2_Missense_Mutation_p.E35K|DMD_uc004dcz.2_Missense_Mutation_p.E1253K|DMD_uc004dcy.1_Missense_Mutation_p.E1372K|DMD_uc004ddb.1_Missense_Mutation_p.E1368K|DMD_uc010ngo.1_Intron	NM_004006	NP_003997	P11532	DMD_HUMAN	dystrophin Dp427m isoform	1376					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)				AAGGATTTTTCAGTCTCCTGG	0.433													11	9	---	---	---	---	PASS
MAGEB16	139604	broad.mit.edu	37	X	35820350	35820350	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:35820350G>A	uc010ngt.1	+	2	316	c.37G>A	c.(37-39)GAT>AAT	p.D13N		NM_001099921	NP_001093391	A2A368	MAGBG_HUMAN	melanoma antigen family B, 16	13										lung(3)|ovary(2)|breast(1)|skin(1)	7						ATGCACACATGATCAGCACCT	0.557													16	14	---	---	---	---	PASS
CXorf22	170063	broad.mit.edu	37	X	35966423	35966423	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:35966423C>T	uc004ddj.2	+						CXorf22_uc010ngv.2_Intron	NM_152632	NP_689845	Q6ZTR5	CX022_HUMAN	hypothetical protein LOC170063											large_intestine(1)|lung(1)|ovary(1)	3						TGCTCTTATTCCCTATAGGCA	0.383													34	9	---	---	---	---	PASS
FAM47C	442444	broad.mit.edu	37	X	37029130	37029130	+	Nonsense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:37029130C>T	uc004ddl.1	+	1	2661	c.2647C>T	c.(2647-2649)CAA>TAA	p.Q883*		NM_001013736	NP_001013758	Q5HY64	FA47C_HUMAN	hypothetical protein LOC442444	883										ovary(3)	3						AGCAACCTATCAAGACCAAAA	0.453													49	19	---	---	---	---	PASS
MAOA	4128	broad.mit.edu	37	X	43542754	43542754	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:43542754C>T	uc004dfy.2	+						MAOA_uc011mkw.1_Intron	NM_000240	NP_000231	P21397	AOFA_HUMAN	monoamine oxidase A						behavior|neurotransmitter biosynthetic process|neurotransmitter catabolic process|neurotransmitter secretion|xenobiotic metabolic process	integral to membrane|mitochondrial outer membrane	primary amine oxidase activity|protein binding			breast(2)|ovary(1)	3					Almotriptan(DB00918)|Carbidopa(DB00190)|Clonazepam(DB01068)|Dopamine(DB00988)|Fluvoxamine(DB00176)|Ginkgo biloba(DB01381)|Imipramine(DB00458)|Isocarboxazid(DB01247)|Levodopa(DB01235)|Linezolid(DB00601)|Lorazepam(DB00186)|Moclobemide(DB01171)|Nicotine(DB00184)|Norepinephrine(DB00368)|Phenelzine(DB00780)|Phenmetrazine(DB00830)|Phentermine(DB00191)|Phenylephrine(DB00388)|Phenylpropanolamine(DB00397)|Pseudoephedrine(DB00852)|Rasagiline(DB01367)|Riboflavin(DB00140)|Rizatriptan(DB00953)|Selegiline(DB01037)|Sumatriptan(DB00669)|Testosterone(DB00624)|Tranylcypromine(DB00752)|Zolmitriptan(DB00315)	TTTTGTTTTTCCTTTAGGACT	0.368													8	6	---	---	---	---	PASS
EFHC2	80258	broad.mit.edu	37	X	44091790	44091790	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:44091790G>A	uc004dgb.3	-	11	1647	c.1557C>T	c.(1555-1557)TAC>TAT	p.Y519Y		NM_025184	NP_079460	Q5JST6	EFHC2_HUMAN	EF-hand domain (C-terminal) containing 2	519	DM10 3.						calcium ion binding			breast(3)|ovary(2)|central_nervous_system(1)	6						AACGAAATAGGTAACCATTCA	0.388													4	1	---	---	---	---	PASS
DUSP21	63904	broad.mit.edu	37	X	44703484	44703484	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:44703484G>T	uc004dgd.2	+	1	236	c.106G>T	c.(106-108)GCC>TCC	p.A36S		NM_022076	NP_071359	Q9H596	DUS21_HUMAN	dual specificity phosphatase 21	36	Tyrosine-protein phosphatase.					cytoplasm|nucleus	MAP kinase tyrosine/serine/threonine phosphatase activity|protein tyrosine phosphatase activity			large_intestine(1)|lung(1)	2						CAATGGTGTGGCCGCCAACGA	0.517													4	29	---	---	---	---	PASS
SYN1	6853	broad.mit.edu	37	X	47466606	47466606	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:47466606G>A	uc004die.2	-						SYN1_uc004did.2_Intron	NM_006950	NP_008881	P17600	SYN1_HUMAN	synapsin I isoform Ia							cell junction|Golgi apparatus	actin binding|ATP binding|ligase activity|transporter activity			ovary(1)	1						CCCTGGAGAGGAAAAACAACA	0.423													11	12	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	X	47662805	47662805	+	IGR	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:47662805C>T								LOC100133957 (143029 upstream) : ZNF81 (33496 downstream)																							CAAATGTCATCCGACAGCTGG	0.522													18	6	---	---	---	---	PASS
ZNF630	57232	broad.mit.edu	37	X	47918009	47918009	+	Missense_Mutation	SNP	A	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:47918009A>T	uc004div.3	-	5	2074	c.1822T>A	c.(1822-1824)TTT>ATT	p.F608I	ZNF630_uc010nhz.1_Intron|ZNF630_uc004diw.2_Missense_Mutation_p.F484I	NM_001037735	NP_001032824	Q2M218	ZN630_HUMAN	zinc finger protein 630	608	C2H2-type 13; degenerate.				regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|lung(1)	2						TTCCAGAAAAAAGTCATTCCA	0.443													14	14	---	---	---	---	PASS
DGKK	139189	broad.mit.edu	37	X	50112027	50112027	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:50112027G>A	uc010njr.1	-							NM_001013742	NP_001013764	Q5KSL6	DGKK_HUMAN	diacylglycerol kinase kappa						activation of protein kinase C activity by G-protein coupled receptor protein signaling pathway|diacylglycerol metabolic process|intracellular signal transduction|platelet activation|response to oxidative stress	cytoplasm|plasma membrane	ATP binding|diacylglycerol kinase activity|metal ion binding			ovary(1)|kidney(1)	2	Ovarian(276;0.236)					GCCTTCAGAGGAAAAAAAATG	0.428													9	6	---	---	---	---	PASS
XAGE5	170627	broad.mit.edu	37	X	52841655	52841655	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:52841655C>T	uc004drd.1	+	2	130	c.65C>T	c.(64-66)CCT>CTT	p.P22L		NM_130775	NP_570131	Q8WWM1	GAGD5_HUMAN	X antigen family, member 5	22										ovary(1)	1						CTGGTTGGGCCTATGCTTGTG	0.363													25	10	---	---	---	---	PASS
SMC1A	8243	broad.mit.edu	37	X	53439105	53439105	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:53439105G>A	uc004dsg.2	-	6	1022	c.953C>T	c.(952-954)TCT>TTT	p.S318F	SMC1A_uc011moe.1_Missense_Mutation_p.S296F|SMC1A_uc011mof.1_Intron	NM_006306	NP_006297	Q14683	SMC1A_HUMAN	structural maintenance of chromosomes 1A	318	Potential.				cell cycle checkpoint|cell division|DNA repair|meiosis|mitotic metaphase/anaphase transition|mitotic prometaphase|mitotic sister chromatid cohesion|mitotic spindle organization|negative regulation of DNA endoreduplication|nuclear mRNA splicing, via spliceosome|response to radiation|signal transduction in response to DNA damage	cohesin core heterodimer|condensed chromosome kinetochore|condensed nuclear chromosome|cytoplasm|meiotic cohesin complex|nucleoplasm	ATP binding|chromatin binding|microtubule motor activity|protein heterodimerization activity			ovary(5)|central_nervous_system(1)	6						ATTCTGCAGAGACTTCTTGGC	0.498													7	12	---	---	---	---	PASS
FAM120C	54954	broad.mit.edu	37	X	54161551	54161551	+	Intron	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:54161551G>A	uc004dsz.3	-						FAM120C_uc011moh.1_Intron	NM_017848	NP_060318	Q9NX05	F120C_HUMAN	hypothetical protein LOC54954											ovary(1)|central_nervous_system(1)	2						AAAACTAAACGATAAAACAGA	0.458													15	9	---	---	---	---	PASS
PFKFB1	5207	broad.mit.edu	37	X	54971969	54971969	+	Missense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:54971969C>A	uc004dty.1	-	10	1072	c.1001G>T	c.(1000-1002)TGT>TTT	p.C334F	PFKFB1_uc010nkd.1_Missense_Mutation_p.C142F|PFKFB1_uc011mol.1_Missense_Mutation_p.C269F	NM_002625	NP_002616	P16118	F261_HUMAN	6-phosphofructo-2-kinase/fructose-2,	334	Fructose-2,6-bisphosphatase.				energy reserve metabolic process|fructose 2,6-bisphosphate metabolic process|gluconeogenesis|glycolysis|intracellular protein kinase cascade	6-phosphofructo-2-kinase/fructose-2,6-biphosphatase 1 complex	6-phosphofructo-2-kinase activity|ATP binding|fructose-2,6-bisphosphate 2-phosphatase activity|identical protein binding			ovary(1)	1						CATCTCCTCACAGACACCCTG	0.428													8	3	---	---	---	---	PASS
MTMR8	55613	broad.mit.edu	37	X	63444242	63444242	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:63444242C>T	uc011mou.1	-	11	2123	c.2055G>A	c.(2053-2055)TTG>TTA	p.L685L	ASB12_uc004dvp.1_Silent_p.L301L|ASB12_uc004dvq.1_Silent_p.L310L|ASB12_uc004dvr.1_Silent_p.L310L	NM_017677	NP_060147	Q96EF0	MTMR8_HUMAN	myotubularin related protein 8	Error:Variant_position_missing_in_Q96EF0_after_alignment						nuclear envelope	protein tyrosine phosphatase activity			ovary(2)|breast(2)	4						GGTAGCTAATCAACATGGGAG	0.522													24	10	---	---	---	---	PASS
P2RY4	5030	broad.mit.edu	37	X	69478397	69478397	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:69478397G>A	uc004dxz.1	-	1	1258	c.1078C>T	c.(1078-1080)CCT>TCT	p.P360S		NM_002565	NP_002556	P51582	P2RY4_HUMAN	pyrimidinergic receptor P2Y4	360	Cytoplasmic (Potential).			Missing: Abolishes agonist-induced phosphorylation. Prevents agonist-induced desensitization and loss of cell surface receptors.|Missing: No functional effect.|Missing: No effect on agonist-induced phosphorylation, no functional effect.	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						TCTGCCCTAGGAGTAGAGCAG	0.602													14	5	---	---	---	---	PASS
CDX4	1046	broad.mit.edu	37	X	72667453	72667453	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:72667453G>A	uc011mqk.1	+	1	364	c.364G>A	c.(364-366)GGA>AGA	p.G122R		NM_005193	NP_005184	O14627	CDX4_HUMAN	caudal type homeobox 4	122						nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity				0	Renal(35;0.156)					TGTGGGCGGTGGAACTAGCGG	0.677													4	3	---	---	---	---	PASS
KIAA2022	340533	broad.mit.edu	37	X	73961213	73961213	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:73961213G>A	uc004eby.2	-	3	3796	c.3179C>T	c.(3178-3180)CCT>CTT	p.P1060L		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	1060					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						GAATTTGTCAGGGGTGAAGTT	0.502													23	13	---	---	---	---	PASS
KIAA2022	340533	broad.mit.edu	37	X	73962755	73962755	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:73962755T>A	uc004eby.2	-	3	2254	c.1637A>T	c.(1636-1638)AAT>ATT	p.N546I		NM_001008537	NP_001008537	Q5QGS0	K2022_HUMAN	hypothetical protein LOC340533	546					base-excision repair, gap-filling|DNA replication proofreading|DNA replication, removal of RNA primer|nucleotide-excision repair, DNA gap filling|regulation of mitotic cell cycle|S phase of mitotic cell cycle	delta DNA polymerase complex	3'-5'-exodeoxyribonuclease activity|DNA-directed DNA polymerase activity			ovary(7)|large_intestine(4)|skin(2)|upper_aerodigestive_tract(1)|central_nervous_system(1)	15						TTTAAAGCGATTAATGATGAT	0.408													18	15	---	---	---	---	PASS
ZDHHC15	158866	broad.mit.edu	37	X	74644526	74644526	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:74644526A>C	uc004ecg.2	-	8	1175	c.697T>G	c.(697-699)TAC>GAC	p.Y233D	ZDHHC15_uc004ech.2_Missense_Mutation_p.Y224D|ZDHHC15_uc011mqo.1_RNA	NM_144969	NP_659406	Q96MV8	ZDH15_HUMAN	zinc finger, DHHC-type containing 15 isoform 1	233						integral to membrane	zinc ion binding			ovary(2)	2						CAACAATGGTAACCAAAGAGA	0.393													13	6	---	---	---	---	PASS
ATP7A	538	broad.mit.edu	37	X	77271290	77271290	+	Missense_Mutation	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:77271290T>A	uc004ecx.3	+	12	2698	c.2538T>A	c.(2536-2538)GAT>GAA	p.D846E		NM_000052	NP_000043	Q04656	ATP7A_HUMAN	ATPase, Cu++ transporting, alpha polypeptide	846	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						AACGTGGAGATATCATTAAAG	0.403													36	24	---	---	---	---	PASS
LPAR4	2846	broad.mit.edu	37	X	78011400	78011400	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:78011400C>T	uc010nme.2	+	2	1439	c.1034C>T	c.(1033-1035)TCC>TTC	p.S345F		NM_005296	NP_005287	Q99677	LPAR4_HUMAN	lysophosphatidic acid receptor 4	345	Cytoplasmic (Potential).					integral to plasma membrane	lipid binding|purinergic nucleotide receptor activity, G-protein coupled			ovary(3)	3						ACAAAGCCTTCCCTTCCAGCT	0.408													35	19	---	---	---	---	PASS
TBX22	50945	broad.mit.edu	37	X	79279581	79279581	+	Missense_Mutation	SNP	C	T	T	rs145161769		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:79279581C>T	uc010nmg.1	+	4	510	c.376C>T	c.(376-378)CGG>TGG	p.R126W	TBX22_uc004edi.1_Missense_Mutation_p.R6W|TBX22_uc004edj.1_Missense_Mutation_p.R126W	NM_001109878	NP_001103348	Q9Y458	TBX22_HUMAN	T-box 22 isoform 1	126	T-box.				multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity	p.R126W(1)		lung(7)|large_intestine(3)|central_nervous_system(2)|breast(1)|skin(1)|ovary(1)	15						CCCCTCTGTTCGGGTCAAGGT	0.488													26	12	---	---	---	---	PASS
TBX22	50945	broad.mit.edu	37	X	79286288	79286288	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:79286288C>T	uc010nmg.1	+	9	1375	c.1241C>T	c.(1240-1242)TCT>TTT	p.S414F	TBX22_uc004edi.1_Missense_Mutation_p.S294F|TBX22_uc004edj.1_Missense_Mutation_p.S414F	NM_001109878	NP_001103348	Q9Y458	TBX22_HUMAN	T-box 22 isoform 1	414					multicellular organismal development|negative regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			lung(7)|large_intestine(3)|central_nervous_system(2)|breast(1)|skin(1)|ovary(1)	15						CCTATGTTATCTTCCCTGGGG	0.438													40	25	---	---	---	---	PASS
KLHL4	56062	broad.mit.edu	37	X	86872928	86872928	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:86872928C>T	uc004efb.2	+						KLHL4_uc004efa.2_Intron	NM_019117	NP_061990	Q9C0H6	KLHL4_HUMAN	kelch-like 4 isoform 1							cytoplasm|microtubule cytoskeleton|nucleolus	actin binding			ovary(2)|lung(1)|breast(1)|central_nervous_system(1)	5						TTTTTCAAACCATCTAGGAGT	0.353													5	5	---	---	---	---	PASS
SYTL4	94121	broad.mit.edu	37	X	99945580	99945580	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:99945580G>A	uc004egd.3	-	9	1053	c.697C>T	c.(697-699)CCC>TCC	p.P233S	SYTL4_uc010nnb.2_5'UTR|SYTL4_uc010nnc.2_Missense_Mutation_p.P233S|SYTL4_uc004ege.3_Missense_Mutation_p.P233S|SYTL4_uc004egf.3_Missense_Mutation_p.P233S|SYTL4_uc004egg.3_Missense_Mutation_p.P233S	NM_080737	NP_542775	Q96C24	SYTL4_HUMAN	synaptotagmin-like 4	233					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)	TGAGATTTGGGAGCAGACATC	0.303													8	2	---	---	---	---	PASS
XKRX	402415	broad.mit.edu	37	X	100170053	100170053	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:100170053G>A	uc004egn.2	-	3	1229	c.624C>T	c.(622-624)TCC>TCT	p.S208S	XKRX_uc011mre.1_Silent_p.S4S	NM_212559	NP_997724	Q6PP77	XKR2_HUMAN	XK, Kell blood group complex subunit-related,	208	Helical; (Potential).					integral to membrane|plasma membrane				breast(1)	1						CAGATACCAGGGAAAATACCA	0.403													28	12	---	---	---	---	PASS
ARMCX2	9823	broad.mit.edu	37	X	100911283	100911283	+	Missense_Mutation	SNP	G	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:100911283G>T	uc004eid.2	-	3	1647	c.1292C>A	c.(1291-1293)CCA>CAA	p.P431Q	ARMCX2_uc004eie.3_Missense_Mutation_p.P431Q|ARMCX2_uc004eif.3_Missense_Mutation_p.P431Q|ARMCX2_uc004eig.3_Missense_Mutation_p.P431Q|ARMCX2_uc010nnt.2_Missense_Mutation_p.P431Q	NM_177949	NP_808818	Q7L311	ARMX2_HUMAN	ALEX2 protein	431	ARM 2.					integral to membrane	binding			ovary(6)	6						TGCAATAATTGGGAGGCCTCC	0.413													4	44	---	---	---	---	PASS
MUM1L1	139221	broad.mit.edu	37	X	105450669	105450669	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:105450669G>A	uc004emf.1	+	4	1893	c.1244G>A	c.(1243-1245)CGA>CAA	p.R415Q	MUM1L1_uc004emg.1_Missense_Mutation_p.R415Q	NM_152423	NP_689636	Q5H9M0	MUML1_HUMAN	melanoma associated antigen (mutated) 1-like 1	415	PWWP.									ovary(2)|pancreas(1)|skin(1)	4						AGTATCAGACGAAAAGAGAGG	0.323													19	10	---	---	---	---	PASS
RNF128	79589	broad.mit.edu	37	X	105970510	105970510	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:105970510G>A	uc004eml.2	+	1	617	c.367G>A	c.(367-369)GGC>AGC	p.G123S	RNF128_uc004emk.2_Intron	NM_194463	NP_919445	Q8TEB7	RN128_HUMAN	ring finger protein 128 isoform 1	123	PA.					endomembrane system|integral to membrane|perinuclear region of cytoplasm	zinc ion binding			ovary(1)|central_nervous_system(1)	2						CATCCAACGCGGCGGGGGCTG	0.607													18	7	---	---	---	---	PASS
TBC1D8B	54885	broad.mit.edu	37	X	106070393	106070393	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:106070393C>T	uc004emo.2	+						MORC4_uc004emp.3_Intron|TBC1D8B_uc004emm.2_Intron|TBC1D8B_uc004emn.2_Intron	NM_017752	NP_060222	Q0IIM8	TBC8B_HUMAN	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						TGTTTTTCACCCCCTAGGTCT	0.348													51	33	---	---	---	---	PASS
PRPS1	5631	broad.mit.edu	37	X	106890828	106890828	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:106890828C>T	uc004ene.3	+						PRPS1_uc010npg.2_Intron|PRPS1_uc011msj.1_Intron	NM_002764	NP_002755	P60891	PRPS1_HUMAN	phosphoribosyl pyrophosphate synthetase 1						5-phosphoribose 1-diphosphate biosynthetic process|hypoxanthine biosynthetic process|nervous system development|nucleoside metabolic process|purine nucleotide biosynthetic process|pyrimidine nucleotide biosynthetic process|ribonucleoside monophosphate biosynthetic process|urate biosynthetic process	cytosol	ATP binding|kinase activity|magnesium ion binding|protein homodimerization activity|ribose phosphate diphosphokinase activity			breast(3)|large_intestine(1)	4						AACATTTTTTCCCTCTAGACT	0.423													21	14	---	---	---	---	PASS
COL4A6	1288	broad.mit.edu	37	X	107408618	107408618	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:107408618C>T	uc004enw.3	-	38	3896	c.3793G>A	c.(3793-3795)GGC>AGC	p.G1265S	COL4A6_uc004env.3_Missense_Mutation_p.G1264S|COL4A6_uc011msn.1_Missense_Mutation_p.G1240S|COL4A6_uc010npk.2_Missense_Mutation_p.G1240S|COL4A6_uc010npj.2_5'Flank	NM_001847	NP_001838	Q14031	CO4A6_HUMAN	type IV alpha 6 collagen isoform A precursor	1265	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						CCATCTAGGCCTGGTCGCCCG	0.592									Alport_syndrome_with_Diffuse_Leiomyomatosis				5	54	---	---	---	---	PASS
TMEM164	84187	broad.mit.edu	37	X	109414719	109414719	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:109414719C>T	uc004eom.2	+	6	977	c.658C>T	c.(658-660)CAC>TAC	p.H220Y	TMEM164_uc004eol.2_Missense_Mutation_p.H71Y|TMEM164_uc010npq.2_Missense_Mutation_p.H181Y	NM_032227	NP_115603	Q5U3C3	TM164_HUMAN	transmembrane protein 164 isoform b	220	Helical; (Potential).					integral to membrane				large_intestine(1)|lung(1)|skin(1)	3						GTTCTTTTATCACTTCAGCGT	0.507													85	31	---	---	---	---	PASS
RGAG1	57529	broad.mit.edu	37	X	109694723	109694723	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:109694723G>A	uc004eor.1	+	3	1124	c.878G>A	c.(877-879)GGA>GAA	p.G293E	RGAG1_uc011msr.1_Missense_Mutation_p.G293E	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	293										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						AACTCTGGGGGAATACCTACC	0.483													62	31	---	---	---	---	PASS
RGAG1	57529	broad.mit.edu	37	X	109697128	109697128	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:109697128C>T	uc004eor.1	+	3	3529	c.3283C>T	c.(3283-3285)CCG>TCG	p.P1095S	RGAG1_uc011msr.1_Missense_Mutation_p.P1095S	NM_020769	NP_065820	Q8NET4	RGAG1_HUMAN	retrotransposon gag domain containing 1	1095										lung(2)|upper_aerodigestive_tract(1)|ovary(1)	4						GATGTCCACTCCGGAAATCAA	0.537													54	23	---	---	---	---	PASS
CHRDL1	91851	broad.mit.edu	37	X	109931896	109931896	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:109931896T>C	uc004eou.3	-	9	1263	c.914A>G	c.(913-915)AAT>AGT	p.N305S	CHRDL1_uc004eov.2_Missense_Mutation_p.N299S|CHRDL1_uc004eow.2_Missense_Mutation_p.N304S|CHRDL1_uc010nps.2_Missense_Mutation_p.N304S|CHRDL1_uc004eot.2_Missense_Mutation_p.N225S|CHRDL1_uc011mss.1_Missense_Mutation_p.N219S	NM_001143981	NP_001137453	Q9BU40	CRDL1_HUMAN	chordin-like 1 isoform 1 precursor	298	VWFC 3.				BMP signaling pathway|cell differentiation|nervous system development|ossification	extracellular region					0						GGGGTATCGATTGGGGCAGTG	0.478													49	39	---	---	---	---	PASS
TRPC5	7224	broad.mit.edu	37	X	111155915	111155915	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:111155915G>A	uc004epl.1	-	3	1423	c.504C>T	c.(502-504)ATC>ATT	p.I168I	TRPC5_uc004epm.1_Silent_p.I168I	NM_012471	NP_036603	Q9UL62	TRPC5_HUMAN	transient receptor potential cation channel,	168	Cytoplasmic (Potential).|ANK 4.				axon guidance	calcium channel complex|integral to plasma membrane	protein binding|store-operated calcium channel activity			urinary_tract(1)	1						GGGGCCGTGGGATAGTGACCC	0.522													29	14	---	---	---	---	PASS
HTR2C	3358	broad.mit.edu	37	X	114141439	114141439	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:114141439C>T	uc004epu.1	+	6	1566	c.838C>T	c.(838-840)CCT>TCT	p.P280S	HTR2C_uc010nqc.1_Missense_Mutation_p.P280S|HTR2C_uc004epv.1_Missense_Mutation_p.P248L	NM_000868	NP_000859	P28335	5HT2C_HUMAN	5-hydroxytryptamine (serotonin) receptor 2C	280	Cytoplasmic (By similarity).				cGMP biosynthetic process|ERK1 and ERK2 cascade|feeding behavior|phosphatidylinositol biosynthetic process|release of sequestered calcium ion into cytosol|response to drug|synaptic transmission	cytoplasm|integral to membrane|nucleus|plasma membrane	1-(4-iodo-2,5-dimethoxyphenyl)propan-2-amine binding|drug binding|phosphatidylinositol phospholipase C activity|protein binding|serotonin binding|serotonin receptor activity			ovary(3)	3					Chlorprothixene(DB01239)|Clozapine(DB00363)|Dexfenfluramine(DB01191)|Fenfluramine(DB00574)|Methysergide(DB00247)|Mianserin(DB06148)|Minaprine(DB00805)|Mirtazapine(DB00370)|Olanzapine(DB00334)|Promazine(DB00420)|Propiomazine(DB00777)|Quetiapine(DB01224)|Sertindole(DB06144)|Thiethylperazine(DB00372)|Tramadol(DB00193)|Ziprasidone(DB00246)	CTCTGCAAACCCTAACCAAGA	0.517													56	20	---	---	---	---	PASS
THOC2	57187	broad.mit.edu	37	X	122747266	122747266	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:122747266G>A	uc004etu.2	-	36	4693	c.4661C>T	c.(4660-4662)TCC>TTC	p.S1554F	THOC2_uc004etv.3_5'Flank|THOC2_uc010nqt.1_RNA|THOC2_uc004etw.1_Missense_Mutation_p.S375F	NM_001081550	NP_001075019	Q8NI27	THOC2_HUMAN	THO complex 2	1554	Lys-rich.				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						GCCACCGGAGGAGATTTTATC	0.289													11	8	---	---	---	---	PASS
ODZ1	10178	broad.mit.edu	37	X	123518520	123518520	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:123518520G>A	uc004euj.2	-	29	6304	c.6240C>T	c.(6238-6240)TTC>TTT	p.F2080F	ODZ1_uc011muj.1_Silent_p.F2086F|ODZ1_uc010nqy.2_Silent_p.F2087F	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	2080	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						TAATTACACTGAATTTTCCAA	0.378													32	14	---	---	---	---	PASS
ODZ1	10178	broad.mit.edu	37	X	123805542	123805542	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:123805542C>T	uc004euj.2	-	6	1223	c.1159G>A	c.(1159-1161)GAG>AAG	p.E387K	ODZ1_uc011muj.1_Missense_Mutation_p.E386K|ODZ1_uc010nqy.2_Missense_Mutation_p.E387K	NM_014253	NP_055068	Q9UKZ4	TEN1_HUMAN	odz, odd Oz/ten-m homolog 1 isoform 3	387	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						CCTTTTTTCTCTGATTTATCA	0.383													37	22	---	---	---	---	PASS
OCRL	4952	broad.mit.edu	37	X	128710350	128710350	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:128710350C>T	uc004euq.2	+	18	2101	c.1936C>T	c.(1936-1938)CTG>TTG	p.L646L	OCRL_uc004eur.2_Silent_p.L646L	NM_000276	NP_000267	Q01968	OCRL_HUMAN	phosphatidylinositol polyphosphate 5-phosphatase	646					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						TGTAACCATCCTGAACTCGGG	0.408													23	20	---	---	---	---	PASS
UTP14A	10813	broad.mit.edu	37	X	129053249	129053249	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:129053249C>T	uc004euz.2	+	7	664	c.636C>T	c.(634-636)CTC>CTT	p.L212L	UTP14A_uc011mup.1_Silent_p.L160L|UTP14A_uc011muq.1_Silent_p.L158L|UTP14A_uc004eva.1_5'Flank	NM_006649	NP_006640	Q9BVJ6	UT14A_HUMAN	UTP14, U3 small nucleolar ribonucleoprotein,	212					rRNA processing	nucleolus|small-subunit processome	protein binding			ovary(2)	2						AGGCCTCTCTCCGAGCCATGA	0.542													48	17	---	---	---	---	PASS
ARHGAP36	158763	broad.mit.edu	37	X	130220569	130220569	+	Silent	SNP	T	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:130220569T>A	uc004evz.2	+	11	1761	c.1416T>A	c.(1414-1416)CTT>CTA	p.L472L	ARHGAP36_uc004ewa.2_Silent_p.L460L|ARHGAP36_uc004ewb.2_Silent_p.L441L|ARHGAP36_uc004ewc.2_Silent_p.L336L	NM_144967	NP_659404	Q6ZRI8	RHG36_HUMAN	hypothetical protein LOC158763 precursor	472					regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol	GTPase activator activity	p.L472I(1)		ovary(3)	3						ATGCACTACTTTCTGATCCAG	0.473													41	18	---	---	---	---	PASS
IGSF1	3547	broad.mit.edu	37	X	130416678	130416678	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:130416678G>A	uc004ewd.2	-	7	1224	c.986C>T	c.(985-987)CCC>CTC	p.P329L	IGSF1_uc004ewe.3_Missense_Mutation_p.P318L|IGSF1_uc004ewf.2_Missense_Mutation_p.P309L	NM_001555	NP_001546	Q8N6C5	IGSF1_HUMAN	immunoglobulin superfamily, member 1 isoform 1	329	Ig-like C2-type 4.|Extracellular (Potential).				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						CACAGCACTGGGCCGAGCAAG	0.493													24	11	---	---	---	---	PASS
USP26	83844	broad.mit.edu	37	X	132159856	132159856	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:132159856C>T	uc010nrm.1	-	6	2863	c.2393G>A	c.(2392-2394)AGA>AAA	p.R798K	USP26_uc011mvf.1_Missense_Mutation_p.R798K	NM_031907	NP_114113	Q9BXU7	UBP26_HUMAN	ubiquitin-specific protease 26	798					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)					GTCTTTGTTTCTTGGATTCTT	0.383													37	25	---	---	---	---	PASS
DDX26B	203522	broad.mit.edu	37	X	134703253	134703253	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:134703253C>T	uc004eyw.3	+						DDX26B_uc004eyx.3_5'Flank	NM_182540	NP_872346	Q5JSJ4	DX26B_HUMAN	DEAD/H (Asp-Glu-Ala-Asp/His) box polypeptide												0	Acute lymphoblastic leukemia(192;6.56e-05)					TTTTATTTTTCTATTACAGAT	0.338													20	10	---	---	---	---	PASS
CD40LG	959	broad.mit.edu	37	X	135741238	135741238	+	Missense_Mutation	SNP	C	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:135741238C>G	uc004faa.2	+	5	522	c.450C>G	c.(448-450)AAC>AAG	p.N150K	CD40LG_uc010nsd.2_Missense_Mutation_p.N129K	NM_000074	NP_000065	P29965	CD40L_HUMAN	CD40 ligand	150	Extracellular (Potential).				anti-apoptosis|B cell proliferation|inflammatory response|isotype switching|leukocyte cell-cell adhesion|platelet activation|positive regulation of endothelial cell apoptosis|positive regulation of interleukin-12 production	extracellular space|integral to plasma membrane|soluble fraction	CD40 receptor binding|cytokine activity|tumor necrosis factor receptor binding			skin(1)	1	Acute lymphoblastic leukemia(192;0.000127)				Atorvastatin(DB01076)	CCATGAGCAACAACTTGGTAA	0.433									Immune_Deficiency_with_Hyper-IgM				121	88	---	---	---	---	PASS
CD40LG	959	broad.mit.edu	37	X	135741253	135741253	+	Silent	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:135741253G>A	uc004faa.2	+	5	537	c.465G>A	c.(463-465)CTG>CTA	p.L155L	CD40LG_uc010nsd.2_Silent_p.L134L	NM_000074	NP_000065	P29965	CD40L_HUMAN	CD40 ligand	155	Extracellular (Potential).		L -> P (in HIGM1).		anti-apoptosis|B cell proliferation|inflammatory response|isotype switching|leukocyte cell-cell adhesion|platelet activation|positive regulation of endothelial cell apoptosis|positive regulation of interleukin-12 production	extracellular space|integral to plasma membrane|soluble fraction	CD40 receptor binding|cytokine activity|tumor necrosis factor receptor binding			skin(1)	1	Acute lymphoblastic leukemia(192;0.000127)				Atorvastatin(DB01076)	TGGTAACCCTGGAAAATGGGA	0.443									Immune_Deficiency_with_Hyper-IgM				132	88	---	---	---	---	PASS
CD40LG	959	broad.mit.edu	37	X	135741254	135741254	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:135741254G>A	uc004faa.2	+	5	538	c.466G>A	c.(466-468)GAA>AAA	p.E156K	CD40LG_uc010nsd.2_Missense_Mutation_p.E135K	NM_000074	NP_000065	P29965	CD40L_HUMAN	CD40 ligand	156	Extracellular (Potential).				anti-apoptosis|B cell proliferation|inflammatory response|isotype switching|leukocyte cell-cell adhesion|platelet activation|positive regulation of endothelial cell apoptosis|positive regulation of interleukin-12 production	extracellular space|integral to plasma membrane|soluble fraction	CD40 receptor binding|cytokine activity|tumor necrosis factor receptor binding			skin(1)	1	Acute lymphoblastic leukemia(192;0.000127)				Atorvastatin(DB01076)	GGTAACCCTGGAAAATGGGAA	0.443									Immune_Deficiency_with_Hyper-IgM				131	88	---	---	---	---	PASS
MCF2	4168	broad.mit.edu	37	X	138699718	138699718	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:138699718C>T	uc004fau.2	-	8	1247	c.953G>A	c.(952-954)CGG>CAG	p.R318Q	MCF2_uc004fav.2_Missense_Mutation_p.R318Q|MCF2_uc011mwl.1_Missense_Mutation_p.R279Q|MCF2_uc010nsh.1_Missense_Mutation_p.R318Q|MCF2_uc011mwm.1_Missense_Mutation_p.R279Q|MCF2_uc011mwn.1_Missense_Mutation_p.R463Q|MCF2_uc004faw.2_Missense_Mutation_p.R378Q|MCF2_uc011mwo.1_Missense_Mutation_p.R378Q	NM_005369	NP_005360	P10911	MCF2_HUMAN	MCF.2 cell line derived transforming sequence	318	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)					GAGTTGTATCCGTTTTGCTTT	0.383													57	16	---	---	---	---	PASS
MAGEC3	139081	broad.mit.edu	37	X	140985241	140985241	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:140985241A>C	uc011mwp.1	+	7	1697	c.1697A>C	c.(1696-1698)GAG>GCG	p.E566A	MAGEC3_uc004fbs.2_Missense_Mutation_p.E268A|MAGEC3_uc010nsj.2_Missense_Mutation_p.E268A	NM_138702	NP_619647	Q8TD91	MAGC3_HUMAN	melanoma antigen family C, 3 isoform 1	566	MAGE 2.									skin(2)|central_nervous_system(1)	3	Acute lymphoblastic leukemia(192;6.56e-05)					GTCCCCGAGGAGGTCATCTGG	0.498													40	22	---	---	---	---	PASS
MAGEC1	9947	broad.mit.edu	37	X	140995733	140995733	+	Missense_Mutation	SNP	A	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:140995733A>G	uc004fbt.2	+	4	2829	c.2543A>G	c.(2542-2544)GAG>GGG	p.E848G	MAGEC1_uc010nsl.1_Intron	NM_005462	NP_005453	O60732	MAGC1_HUMAN	melanoma antigen family C, 1	848							protein binding			ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					AGTTCCCCTGAGAGTCCTCTC	0.522										HNSCC(15;0.026)			61	19	---	---	---	---	PASS
SPANXN3	139067	broad.mit.edu	37	X	142596772	142596772	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:142596772C>T	uc004fbw.2	-	2	386	c.298G>A	c.(298-300)GAA>AAA	p.E100K		NM_001009609	NP_001009609	Q5MJ09	SPXN3_HUMAN	SPANX-N3 protein	100										ovary(2)	2	Acute lymphoblastic leukemia(192;6.56e-05)					CCTAGGTCTTCATCCTCATTT	0.463													35	14	---	---	---	---	PASS
SPANXN1	494118	broad.mit.edu	37	X	144337190	144337190	+	Splice_Site	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:144337190G>A	uc004fcb.2	+	2	76	c.76_splice	c.e2-1	p.M26_splice		NM_001009614	NP_001009614	Q5VSR9	SPXN1_HUMAN	SPANX-N1 protein												0	Acute lymphoblastic leukemia(192;6.56e-05)					TTTCTTAACAGATGCAGGAGA	0.443													22	14	---	---	---	---	PASS
SLITRK2	84631	broad.mit.edu	37	X	144904756	144904756	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:144904756C>T	uc004fcd.2	+	5	1803	c.813C>T	c.(811-813)TCC>TCT	p.S271S	SLITRK2_uc010nsp.2_Silent_p.S271S|SLITRK2_uc010nso.2_Silent_p.S271S|SLITRK2_uc011mwq.1_Silent_p.S271S|SLITRK2_uc011mwr.1_Silent_p.S271S|SLITRK2_uc011mws.1_Silent_p.S271S|SLITRK2_uc004fcg.2_Silent_p.S271S|SLITRK2_uc011mwt.1_Silent_p.S271S	NM_032539	NP_115928	Q9H156	SLIK2_HUMAN	SLIT and NTRK-like family, member 2 precursor	271	Extracellular (Potential).					integral to membrane				ovary(5)|central_nervous_system(1)|pancreas(1)	7	Acute lymphoblastic leukemia(192;6.56e-05)					CCAGTGATTCCAGTCAGAGGG	0.567													29	26	---	---	---	---	PASS
AFF2	2334	broad.mit.edu	37	X	148054991	148054991	+	Intron	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:148054991C>T	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	P51816	AFF2_HUMAN	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)					GAGTCATCTTCCTGTTTCAGT	0.333													37	16	---	---	---	---	PASS
GPR50	9248	broad.mit.edu	37	X	150349046	150349046	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:150349046G>A	uc010ntg.1	+	2	1126	c.991G>A	c.(991-993)GAG>AAG	p.E331K	uc004fes.1_5'Flank|GPR50_uc011myc.1_3'UTR	NM_004224	NP_004215	Q13585	MTR1L_HUMAN	G protein-coupled receptor 50	331	Cytoplasmic (Potential).|Pro-rich.				cell-cell signaling	integral to plasma membrane	melatonin receptor activity			large_intestine(1)|lung(1)|ovary(1)|pancreas(1)	4	Acute lymphoblastic leukemia(192;6.56e-05)					TGAGATGCAGGAGGCCCGTAC	0.557													39	16	---	---	---	---	PASS
ZNF275	10838	broad.mit.edu	37	X	152612881	152612881	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:152612881C>T	uc004fhg.1	+	4	915	c.738C>T	c.(736-738)TTC>TTT	p.F246F	ZNF275_uc011mym.1_Silent_p.F246F|ZNF275_uc011myn.1_Silent_p.F183F			A6NFS0	A6NFS0_HUMAN	SubName: Full=cDNA FLJ16723 fis, clone UTERU3004418, highly similar to Zinc finger protein 275; SubName: Full=Putative uncharacterized protein ZNF275;	246						intracellular	nucleic acid binding|zinc ion binding			ovary(1)	1	all_hematologic(71;4.25e-06)|Acute lymphoblastic leukemia(192;6.56e-05)					GCAGGGATTTCCTGGATCGCC	0.592													27	13	---	---	---	---	PASS
FLNA	2316	broad.mit.edu	37	X	153577261	153577261	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:153577261C>T	uc004fkk.2	-	48	8149	c.7900G>A	c.(7900-7902)GAC>AAC	p.D2634N	FLNA_uc004fki.2_Missense_Mutation_p.D674N|FLNA_uc011mzn.1_Missense_Mutation_p.D767N|FLNA_uc010nuu.1_Missense_Mutation_p.D2626N	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	2634	Self-association site, tail.|Filamin 24.			D -> H (in Ref. 2; CAA37495).	actin crosslink formation|actin cytoskeleton reorganization|cell junction assembly|cytoplasmic sequestering of protein|establishment of protein localization|inhibition of adenylate cyclase activity by dopamine receptor signaling pathway|negative regulation of protein catabolic process|negative regulation of sequence-specific DNA binding transcription factor activity|platelet activation|platelet degranulation|positive regulation of I-kappaB kinase/NF-kappaB cascade|positive regulation of transcription factor import into nucleus|protein localization at cell surface|protein stabilization|receptor clustering	cell cortex|cytosol|extracellular region|nucleus|plasma membrane	actin filament binding|Fc-gamma receptor I complex binding|glycoprotein binding|GTP-Ral binding|protein homodimerization activity|Rac GTPase binding|signal transducer activity|transcription factor binding			breast(6)	6	all_cancers(53;3.7e-16)|all_epithelial(53;2.97e-10)|all_lung(58;1.84e-07)|Lung NSC(58;5.84e-07)|all_hematologic(71;2.45e-06)|Acute lymphoblastic leukemia(192;6.56e-05)|Breast(217;0.176)					ATGTGCTCGTCCCCCCATTTG	0.667													17	7	---	---	---	---	PASS
FLNA	2316	broad.mit.edu	37	X	153587670	153587670	+	Missense_Mutation	SNP	G	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:153587670G>A	uc004fkk.2	-	25	4496	c.4247C>T	c.(4246-4248)CCT>CTT	p.P1416L	FLNA_uc011mzn.1_5'Flank|FLNA_uc010nuu.1_Missense_Mutation_p.P1416L	NM_001110556	NP_001104026	P21333	FLNA_HUMAN	filamin A, alpha isoform 2	1416	Filamin 12.				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)					AGCCTCATAAGGGATGTACTC	0.642													19	10	---	---	---	---	PASS
TAZ	6901	broad.mit.edu	37	X	153648062	153648062	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:153648062C>T	uc004fkx.2	+	7	864	c.560C>T	c.(559-561)TCC>TTC	p.S187F	TAZ_uc004fky.2_Intron|TAZ_uc004fkz.2_RNA|TAZ_uc004fla.2_Missense_Mutation_p.S157F|TAZ_uc004flb.2_Intron|TAZ_uc010nuy.2_Intron|TAZ_uc004flc.3_Intron	NM_000116	NP_000107	Q16635	TAZ_HUMAN	tafazzin isoform 1	187	Hydrophilic.				cardiac muscle contraction|cardiac muscle tissue development|cardiolipin biosynthetic process|cristae formation|hemopoiesis|mitochondrial ATP synthesis coupled electron transport|mitochondrial respiratory chain complex I assembly|skeletal muscle tissue development	integral to membrane|mitochondrion	1-acylglycerophosphocholine O-acyltransferase activity				0	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)					AACATGAGTTCCGAATTCCTG	0.652													16	9	---	---	---	---	PASS
GDI1	2664	broad.mit.edu	37	X	153668416	153668416	+	Silent	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:153668416C>A	uc004fli.3	+	5	859	c.517C>A	c.(517-519)CGG>AGG	p.R173R	GDI1_uc011mzo.1_Silent_p.R173R|GDI1_uc004flj.2_5'Flank	NM_001493	NP_001484	P31150	GDIA_HUMAN	GDP dissociation inhibitor 1	173					protein transport|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|midbody	GTPase activator activity|protein binding				0	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)					TGACGTCTACCGGAAGTTTGA	0.577													5	180	---	---	---	---	PASS
GDI1	2664	broad.mit.edu	37	X	153668445	153668445	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:153668445C>T	uc004fli.3	+	5	888	c.546C>T	c.(544-546)ATC>ATT	p.I182I	GDI1_uc011mzo.1_Silent_p.I182I|GDI1_uc004flj.2_5'Flank	NM_001493	NP_001484	P31150	GDIA_HUMAN	GDP dissociation inhibitor 1	182					protein transport|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction	cytosol|midbody	GTPase activator activity|protein binding				0	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)					AGGATGTCATCGATTTCACTG	0.617													95	53	---	---	---	---	PASS
RAB39B	116442	broad.mit.edu	37	X	154490470	154490470	+	Missense_Mutation	SNP	A	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:154490470A>C	uc004fne.2	-	2	539	c.260T>G	c.(259-261)CTC>CGC	p.L87R		NM_171998	NP_741995	Q96DA2	RB39B_HUMAN	RAB39B, member RAS oncogene family	87					protein transport|small GTPase mediated signal transduction|synapse organization|vesicle-mediated transport	Golgi apparatus|plasma membrane	GTP binding				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)					GTCAAATAAGAGAAGACCACC	0.438													90	50	---	---	---	---	PASS
SPRY3	10251	broad.mit.edu	37	X	155004226	155004226	+	Silent	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:155004226C>T	uc004fnq.1	+	2	1147	c.693C>T	c.(691-693)TTC>TTT	p.F231F	SPRY3_uc010nvl.1_Silent_p.F132F	NM_005840	NP_005831	O43610	SPY3_HUMAN	sprouty homolog 3	231	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)					TCTCCCTCTTCCTACCCTGCC	0.597													31	97	---	---	---	---	PASS
IL9R	3581	broad.mit.edu	37	X	155233218	155233218	+	Missense_Mutation	SNP	T	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:155233218T>C	uc004fnv.1	+	3	426	c.247T>C	c.(247-249)TTC>CTC	p.F83L	IL9R_uc010nvn.2_Missense_Mutation_p.F62L|IL9R_uc004fnu.1_Missense_Mutation_p.F130L	NM_002186	NP_002177	Q01113	IL9R_HUMAN	interleukin 9 receptor precursor	83	Extracellular (Potential).				cell proliferation	extracellular space|integral to plasma membrane	interleukin-9 receptor activity				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)					CTGGCTCCTCTTCACCAGGTG	0.597													9	19	---	---	---	---	PASS
TBL1Y	90665	broad.mit.edu	37	Y	6893165	6893165	+	Missense_Mutation	SNP	C	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:6893165C>T	uc004frb.2	+	6	687	c.40C>T	c.(40-42)CGG>TGG	p.R14W	TBL1Y_uc004frc.2_Missense_Mutation_p.R14W|TBL1Y_uc004frd.2_Missense_Mutation_p.R14W|TBL1Y_uc011nap.1_Intron	NM_033284	NP_150600	Q9BQ87	TBL1Y_HUMAN	transducin beta-like 1Y	14	LisH.				transcription, DNA-dependent						0						TCTGGTTTATCGGTATCTCCA	0.448													23	14	---	---	---	---	PASS
KDM5D	8284	broad.mit.edu	37	Y	21868707	21868707	+	Nonsense_Mutation	SNP	C	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:21868707C>A	uc004fug.2	-	25	4330	c.4042G>T	c.(4042-4044)GAG>TAG	p.E1348*	KDM5D_uc011naz.1_Nonsense_Mutation_p.E1379*|KDM5D_uc010nwy.2_Nonsense_Mutation_p.E1291*|KDM5D_uc004fuf.2_Nonsense_Mutation_p.E523*	NM_004653	NP_004644	Q9BY66	KDM5D_HUMAN	jumonji, AT rich interactive domain 1D isoform	1348					chromatin modification|spermatogenesis	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			skin(1)	1					Vitamin C(DB00126)	GCCATGTTCTCAGGACTGGTC	0.468													21	6	---	---	---	---	PASS
ATAD3B	83858	broad.mit.edu	37	1	1426423	1426423	+	Intron	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:1426423delG	uc001afv.2	+						ATAD3B_uc001afx.2_Intron|ATAD3B_uc001afy.2_Intron	NM_031921	NP_114127	Q5T9A4	ATD3B_HUMAN	AAA-ATPase  TOB3								ATP binding|nucleoside-triphosphatase activity				0	all_cancers(77;0.00164)|all_epithelial(69;0.000959)|all_lung(157;0.00963)|Lung NSC(156;0.0232)|Ovarian(185;0.0634)	all_epithelial(116;9.48e-15)|all_lung(118;9.67e-07)|Lung NSC(185;5.59e-05)|Renal(390;0.00571)|Breast(487;0.0183)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Lung SC(97;0.217)		Epithelial(90;1.79e-36)|OV - Ovarian serous cystadenocarcinoma(86;3.94e-22)|Colorectal(212;0.000155)|COAD - Colon adenocarcinoma(227;0.000193)|Kidney(185;0.00227)|BRCA - Breast invasive adenocarcinoma(365;0.00461)|STAD - Stomach adenocarcinoma(132;0.00644)|KIRC - Kidney renal clear cell carcinoma(229;0.0339)|Lung(427;0.145)		TGAGTTGGGTGGTGGGGGTGG	0.612													4	2	---	---	---	---	
MEGF6	1953	broad.mit.edu	37	1	3486886	3486886	+	Intron	DEL	C	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:3486886delC	uc001akl.2	-							NM_001409	NP_001400	O75095	MEGF6_HUMAN	EGF-like-domain, multiple 3 precursor							extracellular region	calcium ion binding			large_intestine(1)	1	all_cancers(77;0.00681)|all_epithelial(69;0.00301)|Ovarian(185;0.0634)|Lung NSC(156;0.0969)|all_lung(157;0.105)	all_epithelial(116;7.41e-22)|all_lung(118;8.3e-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;3.78e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.86e-22)|GBM - Glioblastoma multiforme(42;1.96e-12)|Colorectal(212;6.15e-05)|COAD - Colon adenocarcinoma(227;0.000241)|Kidney(185;0.000448)|BRCA - Breast invasive adenocarcinoma(365;0.000779)|KIRC - Kidney renal clear cell carcinoma(229;0.00645)|STAD - Stomach adenocarcinoma(132;0.00669)|Lung(427;0.213)		CAACCCACTGCAGGCAGAAGG	0.647													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	4487040	4487041	+	IGR	INS	-	GTGA	GTGA	rs144668752	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:4487040_4487041insGTGA								LOC284661 (2296 upstream) : AJAP1 (228064 downstream)																							tgacattgtgtgtgtgtgtatg	0.351													2	5	---	---	---	---	
ESPN	83715	broad.mit.edu	37	1	6504820	6504821	+	Intron	INS	-	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:6504820_6504821insC	uc001amy.2	+							NM_031475	NP_113663	B1AK53	ESPN_HUMAN	espin						sensory perception of sound	brush border|cytoplasm|filamentous actin|stereocilium	actin filament binding|SH3 domain binding				0	Ovarian(185;0.0386)|all_lung(157;0.154)	all_cancers(23;3.6e-37)|all_epithelial(116;2.56e-22)|all_lung(118;7.57e-07)|Lung NSC(185;4.26e-06)|all_hematologic(16;6.92e-06)|Colorectal(325;4.47e-05)|Acute lymphoblastic leukemia(12;4.92e-05)|Breast(487;7.61e-05)|Renal(390;0.0007)|Hepatocellular(190;0.00308)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0392)		Epithelial(90;1.82e-35)|GBM - Glioblastoma multiforme(13;3e-28)|Kidney(185;3.04e-09)|KIRC - Kidney renal clear cell carcinoma(229;5.63e-08)|Colorectal(212;7e-08)|COAD - Colon adenocarcinoma(227;1.41e-05)|BRCA - Breast invasive adenocarcinoma(365;0.000109)|STAD - Stomach adenocarcinoma(132;0.00167)|Lung(427;0.0108)|LUSC - Lung squamous cell carcinoma(448;0.0253)|READ - Rectum adenocarcinoma(331;0.0419)		TTGGCCTTGGGCCGCCCTGCCA	0.584													7	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	8050558	8050559	+	IGR	INS	-	CAC	CAC	rs149925810		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:8050558_8050559insCAC								PARK7 (5217 upstream) : ERRFI1 (21221 downstream)																							accatcaccttcaccaccacca	0.000													4	2	---	---	---	---	
CELA2B	51032	broad.mit.edu	37	1	15807393	15807394	+	Intron	INS	-	T	T	rs112741206		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:15807393_15807394insT	uc001awl.2	+							NM_015849	NP_056933	P08218	CEL2B_HUMAN	elastase 2B preproprotein						proteolysis	extracellular region	serine-type endopeptidase activity			ovary(1)	1						gcctggccTGATTttttttttt	0.005													3	3	---	---	---	---	
CLCNKB	1188	broad.mit.edu	37	1	16378499	16378500	+	Intron	INS	-	TCCTG	TCCTG	rs145267024	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16378499_16378500insTCCTG	uc001axw.3	+						FAM131C_uc010obz.1_Intron|CLCNKB_uc001axx.3_Intron|CLCNKB_uc001axy.3_Intron	NM_000085	NP_000076	P51801	CLCKB_HUMAN	chloride channel Kb isoform 1						excretion	chloride channel complex|integral to plasma membrane	voltage-gated chloride channel activity			skin(1)	1		Colorectal(325;3.46e-05)|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;0.0178)|Colorectal(212;8.04e-08)|COAD - Colon adenocarcinoma(227;5.46e-06)|BRCA - Breast invasive adenocarcinoma(304;9.02e-05)|Kidney(64;0.00016)|KIRC - Kidney renal clear cell carcinoma(64;0.00258)|STAD - Stomach adenocarcinoma(313;0.00655)|READ - Rectum adenocarcinoma(331;0.0649)		TCCCTCGTGGCTCCTGTCCCCA	0.644													5	3	---	---	---	---	
CROCCL1	84809	broad.mit.edu	37	1	16945182	16945184	+	RNA	DEL	AAT	-	-	rs71803374		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:16945182_16945184delAAT	uc010ocf.1	-	4		c.973_975delATT			CROCCL1_uc009vov.1_RNA|CROCCL1_uc001aze.2_RNA|CROCCL1_uc001azf.2_RNA					Homo sapiens mRNA for FLJ00313 protein.												0						TACTGATGAAAATAATAACAGAT	0.246													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	24589995	24589995	+	IGR	DEL	T	-	-	rs11309456		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:24589995delT								LOC284632 (51815 upstream) : GRHL3 (55886 downstream)																							tttctttttgtttttttttgt	0.189													3	3	---	---	---	---	
PTPRU	10076	broad.mit.edu	37	1	29650889	29650889	+	Intron	DEL	C	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:29650889delC	uc001bru.2	+						PTPRU_uc001brv.2_Intron|PTPRU_uc001brw.2_Intron|PTPRU_uc009vtq.2_Intron|PTPRU_uc009vtr.2_Intron|PTPRU_uc001brx.2_Intron	NM_005704	NP_005695	Q92729	PTPRU_HUMAN	protein tyrosine phosphatase, receptor type, U						canonical Wnt receptor signaling pathway|cell differentiation|negative regulation of cell migration|negative regulation of cell proliferation|negative regulation of transcription, DNA-dependent|protein localization at cell surface|transmembrane receptor protein tyrosine phosphatase signaling pathway	cell-cell junction|integral to plasma membrane	beta-catenin binding|transmembrane receptor protein tyrosine phosphatase activity			large_intestine(3)|ovary(1)|kidney(1)|central_nervous_system(1)|skin(1)	7		Colorectal(325;0.000399)|Lung NSC(340;0.00953)|all_lung(284;0.0112)|Breast(348;0.0126)|all_neural(195;0.0199)|Myeloproliferative disorder(586;0.0255)|Ovarian(437;0.0563)|Medulloblastoma(700;0.123)		Colorectal(126;6.99e-07)|COAD - Colon adenocarcinoma(152;3.18e-05)|STAD - Stomach adenocarcinoma(196;0.0234)|READ - Rectum adenocarcinoma(331;0.0686)|BRCA - Breast invasive adenocarcinoma(304;0.0871)		GTGGGAAAGACCCCTGAGAAG	0.642													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	31978597	31978597	+	IGR	DEL	T	-	-	rs5773364		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:31978597delT								SERINC2 (71073 upstream) : LOC284551 (5439 downstream)																							TGCCAACAGCTTTTTTTTTTT	0.483													5	3	---	---	---	---	
CSMD2	114784	broad.mit.edu	37	1	34002321	34002322	+	Intron	INS	-	GTCTGTCT	GTCTGTCT	rs149760750	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:34002321_34002322insGTCTGTCT	uc001bxn.1	-						CSMD2_uc001bxm.1_Intron	NM_052896	NP_443128	Q7Z408	CSMD2_HUMAN	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)				TGAGGACAGAGGTCTCACTCAT	0.584													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	39010067	39010068	+	IGR	DEL	GT	-	-	rs71785784		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:39010067_39010068delGT								POU3F1 (497617 upstream) : RRAGC (294947 downstream)																							ggttggagaagtgtgtgtgtgt	0.134													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	40161125	40161131	+	IGR	DEL	GAAGAAA	-	-	rs76305703		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:40161125_40161131delGAAGAAA								HPCAL4 (4036 upstream) : PPIE (43399 downstream)																							agaaaagaaggaagaaagaagaaagaa	0.198													2	4	---	---	---	---	
CTPS	1503	broad.mit.edu	37	1	41466737	41466737	+	Frame_Shift_Del	DEL	C	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:41466737delC	uc001cgk.3	+	10	1550	c.1042delC	c.(1042-1044)CAAfs	p.Q348fs	CTPS_uc010ojo.1_Frame_Shift_Del_p.Q117fs|CTPS_uc001cgl.3_Frame_Shift_Del_p.Q348fs|CTPS_uc010ojq.1_Frame_Shift_Del_p.Q192fs|CTPS_uc009vwe.2_Frame_Shift_Del_p.Q68fs	NM_001905	NP_001896	P17812	PYRG1_HUMAN	CTP synthase	348	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)	CATCACCTCGCAAGAAGAGCC	0.512													17	12	---	---	---	---	
JUN	3725	broad.mit.edu	37	1	59250779	59250780	+	5'Flank	DEL	CG	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:59250779_59250780delCG	uc001cze.2	-						uc001czf.2_5'Flank|uc010oop.1_5'Flank	NM_002228	NP_002219	P05412	JUN_HUMAN	jun oncogene						innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|negative regulation by host of viral transcription|negative regulation of DNA binding|negative regulation of transcription, DNA-dependent|positive regulation by host of viral transcription|positive regulation of transcription from RNA polymerase II promoter|regulation of sequence-specific DNA binding transcription factor activity|SMAD protein import into nucleus|SMAD 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|transforming growth factor beta receptor signaling pathway		R-SMAD binding|Rho GTPase activator activity|sequence-specific enhancer binding RNA polymerase II transcription factor activity|transcription coactivator activity|transcription factor binding|transcription regulatory region DNA binding				0	all_cancers(7;8.55e-07)				Arsenic trioxide(DB01169)|Irbesartan(DB01029)|Vinblastine(DB00570)	CACAACATAACGCGCGCGCGCG	0.614			A		sarcoma						OREG0013519	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	61064063	61064065	+	IGR	DEL	GAG	-	-	rs66931197		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:61064063_61064065delGAG								C1orf87 (524637 upstream) : NFIA (478881 downstream)																							aagaagggaagaggaggagaagg	0.015													1	6	---	---	---	---	
INADL	10207	broad.mit.edu	37	1	62237396	62237397	+	Intron	INS	-	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:62237396_62237397insT	uc001dab.2	+						INADL_uc009waf.1_Intron|INADL_uc001daa.2_Intron|INADL_uc001dad.3_Intron	NM_176877	NP_795352	Q8NI35	INADL_HUMAN	InaD-like						intracellular signal transduction|tight junction assembly	apical plasma membrane|perinuclear region of cytoplasm|tight junction	protein binding			ovary(3)|skin(1)	4						CCtttctttccttttttttttt	0.134													4	2	---	---	---	---	
ROR1	4919	broad.mit.edu	37	1	64251851	64251851	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:64251851delT	uc001dbj.2	+						ROR1_uc001dbi.3_Intron	NM_005012	NP_005003	Q01973	ROR1_HUMAN	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						TTAACACTGATTAGTCTTCCT	0.453													4	2	---	---	---	---	
AK3L1	205	broad.mit.edu	37	1	65668617	65668617	+	Intron	DEL	C	-	-	rs75116126		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:65668617delC	uc001dby.2	+						AK3L1_uc009wan.2_Intron|AK3L1_uc001dbz.2_Intron|AK3L1_uc001dca.2_Intron	NM_203464	NP_982289	P27144	KAD4_HUMAN	adenylate kinase 3-like 1 isoform 7							mitochondrial matrix	adenylate kinase activity|ATP binding|GTP binding				0						tgtagtggcaccatcatagct	0.000													4	2	---	---	---	---	
WDR78	79819	broad.mit.edu	37	1	67379666	67379667	+	Intron	INS	-	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:67379666_67379667insA	uc001dcx.2	-						WDR78_uc001dcy.2_Intron|WDR78_uc001dcz.2_Intron	NM_024763	NP_079039	Q5VTH9	WDR78_HUMAN	WD repeat domain 78 isoform 1											ovary(2)	2						aactccgtctcaaaaaaaaaaa	0.000													4	2	---	---	---	---	
IL23R	149233	broad.mit.edu	37	1	67721131	67721131	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:67721131delT	uc001ddo.2	+						IL23R_uc009waz.2_Intron|IL23R_uc001ddp.2_Intron|IL23R_uc010opi.1_Intron|IL23R_uc010opj.1_Intron|IL23R_uc010opk.1_Intron|IL23R_uc010opl.1_Intron|IL23R_uc010opm.1_Intron|IL23R_uc001ddq.2_Intron|IL23R_uc010opn.1_Intron|IL23R_uc001ddr.2_Intron|IL23R_uc010opo.1_Intron|IL23R_uc010opp.1_Intron|IL23R_uc010opq.1_Intron|IL23R_uc010opr.1_Intron|IL23R_uc010ops.1_Intron|IL23R_uc010opt.1_Intron|IL23R_uc010opu.1_Intron|IL23R_uc010opv.1_Intron|IL23R_uc010opw.1_Intron|IL23R_uc010opx.1_Intron|IL23R_uc010opy.1_Intron|IL23R_uc010opz.1_Intron|IL23R_uc010oqa.1_Intron|IL23R_uc010oqb.1_Intron|IL23R_uc010oqc.1_Intron|IL23R_uc010oqd.1_Intron|IL23R_uc010oqe.1_Intron|IL23R_uc010oqf.1_Intron|IL23R_uc010oqg.1_Intron|IL23R_uc010oqh.1_Intron|IL23R_uc001dds.2_Intron|IL23R_uc001ddt.2_Intron	NM_144701	NP_653302	Q5VWK5	IL23R_HUMAN	interleukin 23 receptor precursor						inflammatory response|negative regulation of interleukin-10 production|positive regulation of defense response to virus by host|positive regulation of interferon-gamma production|positive regulation of interleukin-12 production|positive regulation of memory T cell differentiation|positive regulation of T cell mediated cytotoxicity|positive regulation of T-helper 1 type immune response|positive regulation of T-helper 17 cell lineage commitment|positive regulation of T-helper 17 type immune response|response to interferon-gamma|response to lipopolysaccharide	interleukin-23 receptor complex	receptor activity				0						CTTTAATTAAttttttttttg	0.144													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	70863923	70863923	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:70863923delA								HHLA3 (30220 upstream) : CTH (13032 downstream)																							CAGGTAGGCGAAAAGACACTA	0.363													4	2	---	---	---	---	
NEXN	91624	broad.mit.edu	37	1	78393284	78393285	+	Intron	INS	-	GTGA	GTGA			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:78393284_78393285insGTGA	uc001dic.3	+						NEXN_uc001dia.3_Intron|NEXN_uc009wcb.1_Intron|NEXN_uc001dib.3_Intron|NEXN_uc001did.1_Intron|NEXN_uc001dif.1_Intron	NM_144573	NP_653174	Q0ZGT2	NEXN_HUMAN	nexilin (F actin binding protein)						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)		tgtgtgtgtgtgtctgtgtgtg	0.089													4	3	---	---	---	---	
LPHN2	23266	broad.mit.edu	37	1	82416922	82416923	+	Intron	INS	-	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:82416922_82416923insA	uc001dit.3	+						LPHN2_uc001dis.2_Intron|LPHN2_uc001diu.2_Intron|LPHN2_uc001div.2_Intron|LPHN2_uc009wcd.2_Intron|LPHN2_uc001diw.2_Intron	NM_012302	NP_036434	O95490	LPHN2_HUMAN	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)		AGTATAAAAGTAAAAAAAAATT	0.292													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	93791381	93791381	+	RNA	DEL	C	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:93791381delC	uc001dps.2	-	5		c.430delG			uc001dpt.1_RNA					Homo sapiens cDNA FLJ42965 fis, clone BRSTN2014751.																		ctagccTTTTCTAAGTGAAAG	0.164													3	3	---	---	---	---	
RWDD3	25950	broad.mit.edu	37	1	95695551	95695553	+	Intron	DEL	TCT	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:95695551_95695553delTCT	uc001drd.3	+						uc001dre.1_Intron	NM_152487	NP_689700	Q9Y3V2	RWDD3_HUMAN	transmembrane protein 56							cytoplasm|nucleus	protein binding			ovary(1)	1		all_epithelial(167;5.99e-05)|all_lung(203;0.00168)|Lung NSC(277;0.00769)		all cancers(265;0.112)|Epithelial(280;0.229)		tcctcctacctctttttttttct	0.153													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	101990506	101990506	+	IGR	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:101990506delG								S1PR1 (283430 upstream) : OLFM3 (277621 downstream)																							ggcattctttggtggcagcat	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	105288161	105288161	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:105288161delA								None (None upstream) : None (None downstream)																							CTGATGCAAGAAAATTGGTAA	0.398													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	113669415	113669415	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:113669415delT								LRIG2 (2073 upstream) : MAGI3 (264060 downstream)																							TCAGCAACTCTTCTGTACTTC	0.398													4	2	---	---	---	---	
C1orf203	84852	broad.mit.edu	37	1	116959814	116959814	+	Intron	DEL	T	-	-	rs35672604		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:116959814delT	uc009whb.2	-						C1orf203_uc001egg.3_Intron|C1orf203_uc001egi.3_Intron|C1orf203_uc001egj.3_Intron|C1orf203_uc001egk.3_Intron	NR_027646				Homo sapiens cDNA, FLJ99430.												0						TACAATTCACttttttttttt	0.030													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	119569698	119569698	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:119569698delT								TBX15 (37519 upstream) : WARS2 (4143 downstream)																							TCGCAATGGGTTTCCCTACAG	0.483													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	120023108	120023111	+	IGR	DEL	GAAA	-	-	rs61808475	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:120023108_120023111delGAAA								HSD3B2 (33988 upstream) : HSD3B1 (26715 downstream)																							aggaaggaaggaaagaaggaagga	0.127													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	121127771	121127772	+	Intron	DEL	GG	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:121127771_121127772delGG	uc001eis.2	+							NM_001042758	NP_001036223			SLIT-ROBO Rho GTPase activating protein 2																		GGGAAGGCCTGGGGTAAAATGA	0.505													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	142561248	142561249	+	IGR	INS	-	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:142561248_142561249insG								None (None upstream) : None (None downstream)																							ccaagaaatatgggactatgtg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	142615213	142615214	+	IGR	DEL	TG	-	-	rs76918672		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:142615213_142615214delTG								None (None upstream) : None (None downstream)																							tgttttgttttgtttttttttt	0.000													4	3	---	---	---	---	
NBPF9	400818	broad.mit.edu	37	1	145057178	145057179	+	Intron	INS	-	AGA	AGA	rs3978504		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145057178_145057179insAGA	uc010oye.1	+						NBPF10_uc009wir.2_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron|PDE4DIP_uc001elo.2_Intron|PDE4DIP_uc001emh.2_Intron			Q3BBV1	NBPFK_HUMAN	RecName: Full=Neuroblastoma breakpoint family member 8;							cytoplasm					0						CACTATTAAGCAGAACACTTTA	0.262													6	4	---	---	---	---	
NBPF9	400818	broad.mit.edu	37	1	145204443	145204444	+	Intron	INS	-	G	G	rs144070974	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145204443_145204444insG	uc010oye.1	+						NBPF10_uc009wir.2_Intron|NBPF9_uc010oyf.1_Intron|NBPF9_uc010oyg.1_Intron			Q3BBV1	NBPFK_HUMAN	RecName: Full=Neuroblastoma breakpoint family member 8;							cytoplasm					0						cagaaggcaaaggggaagcaag	0.000													3	3	---	---	---	---	
NBPF10	100132406	broad.mit.edu	37	1	145214044	145214044	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145214044delT	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	A6NDV3	A6NDV3_HUMAN	hypothetical protein LOC55672												0	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		GTATATTTGCTTTTTTTTTTT	0.289													1	5	---	---	---	---	
NBPF10	100132406	broad.mit.edu	37	1	145220306	145220307	+	Intron	INS	-	T	T	rs150855626		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145220306_145220307insT	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	A6NDV3	A6NDV3_HUMAN	hypothetical protein LOC55672												0	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		CTTGAtttttcttttttttttt	0.025													3	3	---	---	---	---	
NBPF10	100132406	broad.mit.edu	37	1	145280713	145280714	+	Intron	DEL	TT	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145280713_145280714delTT	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	A6NDV3	A6NDV3_HUMAN	hypothetical protein LOC55672												0	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		GGGAAGTTGAtttttttttttt	0.218													4	3	---	---	---	---	
NBPF10	100132406	broad.mit.edu	37	1	145458500	145458500	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145458500delT	uc001emp.3	+						POLR3GL_uc001enp.1_Intron	NM_017940	NP_060410	A6NDV3	A6NDV3_HUMAN	hypothetical protein LOC55672												0	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		AAAATTACGAttttttttttt	0.090													2	5	---	---	---	---	
NBPF10	100132406	broad.mit.edu	37	1	145477674	145477674	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:145477674delT	uc001emp.3	+						LIX1L_uc001enr.2_Intron	NM_017940	NP_060410	A6NDV3	A6NDV3_HUMAN	hypothetical protein LOC55672												0	all_hematologic(923;0.032)			Colorectal(1306;1.36e-07)|KIRC - Kidney renal clear cell carcinoma(1967;0.00258)		CCAGGGACTCTTTTTCAGATA	0.433													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	146467842	146467843	+	IGR	DEL	GA	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:146467842_146467843delGA								NBPF10 (43747 upstream) : LOC728989 (23052 downstream)																							TATTCTTCgtgagtgtgtgtgt	0.158													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	146471945	146471946	+	IGR	INS	-	T	T	rs138975680	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:146471945_146471946insT								NBPF10 (47850 upstream) : LOC728989 (18949 downstream)																							aatttttctgattttcagtaga	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	149299254	149299254	+	IGR	DEL	T	-	-	rs142718750		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:149299254delT								LOC388692 (7512 upstream) : FCGR1C (70040 downstream)																							CCCCACATACTTGCGCCCTGC	0.532													3	3	---	---	---	---	
GON4L	54856	broad.mit.edu	37	1	155793687	155793688	+	Intron	INS	-	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:155793687_155793688insA	uc001flz.2	-						GON4L_uc001fly.1_Intron|GON4L_uc009wrh.1_Intron|GON4L_uc001fma.1_Intron|GON4L_uc001fmc.2_Intron|GON4L_uc001fmd.3_Intron|GON4L_uc009wri.2_Intron|GON4L_uc001fme.2_Intron|GON4L_uc001fmf.2_5'Flank	NM_001037533	NP_001032622	Q3T8J9	GON4L_HUMAN	gon-4-like isoform a						regulation of transcription, DNA-dependent	cytoplasm|nucleus	DNA binding			ovary(3)	3	Hepatocellular(266;0.0997)|all_hematologic(923;0.145)|all_neural(408;0.195)					cACACACACACACAAAAAAACC	0.119													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	161716375	161716376	+	IGR	DEL	CT	-	-	rs151003373		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:161716375_161716376delCT								FCRLB (18443 upstream) : DUSP12 (3205 downstream)																							tccttccttccttcTCTCTCTC	0.035													4	2	---	---	---	---	
GPR161	23432	broad.mit.edu	37	1	168058972	168058973	+	Intron	INS	-	ACTGACAGAGGC	ACTGACAGAGGC	rs147540019	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:168058972_168058973insACTGACAGAGGC	uc001gfc.2	-						GPR161_uc001gfb.2_Intron|GPR161_uc010pll.1_Intron|GPR161_uc010plm.1_Intron|GPR161_uc009wvo.2_Intron|GPR161_uc001gfd.2_Intron|GPR161_uc010pln.1_Intron	NM_153832	NP_722561	Q8N6U8	GP161_HUMAN	G protein-coupled receptor 161 isoform 2						multicellular organismal development	integral to membrane|plasma membrane	G-protein coupled receptor activity				0	all_hematologic(923;0.215)					CCATGAGTGTGACTCCCTGCCT	0.649													4	3	---	---	---	---	
TBX19	9095	broad.mit.edu	37	1	168273422	168273423	+	Intron	INS	-	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:168273422_168273423insT	uc001gfl.2	+						TBX19_uc001gfj.3_Intron|TBX19_uc001gfm.2_Intron	NM_005149	NP_005140	O60806	TBX19_HUMAN	T-box 19						anatomical structure morphogenesis	nucleus	DNA binding				0	all_hematologic(923;0.215)					tggccatgccattttggggaca	0.000													4	2	---	---	---	---	
RC3H1	149041	broad.mit.edu	37	1	173930702	173930702	+	Intron	DEL	A	-	-	rs71715802		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:173930702delA	uc001gju.3	-						RC3H1_uc010pms.1_Intron|RC3H1_uc001gjv.2_Intron|RC3H1_uc010pmt.1_Intron	NM_172071	NP_742068	Q5TC82	RC3H1_HUMAN	roquin						cytoplasmic mRNA processing body assembly|negative regulation of activated T cell proliferation|negative regulation of B cell proliferation|negative regulation of germinal center formation|negative regulation of T-helper cell differentiation|nuclear-transcribed mRNA catabolic process|regulation of mRNA stability|regulation of T cell receptor signaling pathway	cytoplasmic mRNA processing body|stress granule	mRNA 3'-UTR binding|ubiquitin-protein ligase activity|zinc ion binding			ovary(2)	2						TATATAGTTTAAAAAAAAAAA	0.259													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	178637598	178637599	+	IGR	INS	-	AG	AG	rs56404314		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:178637598_178637599insAG								C1orf220 (119574 upstream) : RALGPS2 (56701 downstream)																							ggaaggaaggaGAGAGAGAGAG	0.297													3	3	---	---	---	---	
TOR3A	64222	broad.mit.edu	37	1	179064560	179064561	+	3'UTR	INS	-	AGAT	AGAT	rs145389283	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:179064560_179064561insAGAT	uc001gmd.2	+	6					TOR3A_uc010pnd.1_3'UTR	NM_022371	NP_071766	Q9H497	TOR3A_HUMAN	torsin family 3, member A precursor						chaperone mediated protein folding requiring cofactor	endoplasmic reticulum	ATP binding			pancreas(1)	1						aggtcccaccgagatagatagg	0.327													5	3	---	---	---	---	
SYT2	127833	broad.mit.edu	37	1	202565352	202565353	+	3'UTR	DEL	AC	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:202565352_202565353delAC	uc001gye.2	-	9					SYT2_uc010pqb.1_3'UTR|SYT2_uc009xaf.2_3'UTR	NM_001136504	NP_001129976	Q8N9I0	SYT2_HUMAN	synaptotagmin II						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)	GCTCAAAGAGACACACACACAC	0.327													5	3	---	---	---	---	
EPRS	2058	broad.mit.edu	37	1	220192171	220192172	+	Intron	INS	-	AAA	AAA	rs66654924		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:220192171_220192172insAAA	uc001hly.1	-						EPRS_uc010puf.1_Intron|EPRS_uc001hlz.1_Intron|EPRS_uc009xdt.1_Intron	NM_004446	NP_004437	P07814	SYEP_HUMAN	glutamyl-prolyl tRNA synthetase						glutamyl-tRNA aminoacylation|prolyl-tRNA aminoacylation|protein complex assembly	cytosol|soluble fraction	ATP binding|glutamate-tRNA ligase activity|proline-tRNA ligase activity|protein binding|RNA binding			ovary(1)|skin(1)	2				GBM - Glioblastoma multiforme(131;0.0735)	L-Glutamic Acid(DB00142)|L-Proline(DB00172)	TGATAAACtttaaaaaaaaaaa	0.267													5	3	---	---	---	---	
MIA3	375056	broad.mit.edu	37	1	222801364	222801364	+	Frame_Shift_Del	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:222801364delA	uc001hnl.2	+	4	811	c.802delA	c.(802-804)AAAfs	p.K268fs	MIA3_uc009xea.1_Frame_Shift_Del_p.K104fs	NM_198551	NP_940953	Q5JRA6	MIA3_HUMAN	melanoma inhibitory activity family, member 3	268	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)		TAAACTTTTGAAAAAAGAAAT	0.358													34	15	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	224971519	224971522	+	IGR	DEL	TTTG	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:224971519_224971522delTTTG								CNIH3 (43270 upstream) : DNAH14 (145834 downstream)																							tgtttttgtttttgtttgttttta	0.353													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	1	232986438	232986438	+	IGR	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:232986438delG								KIAA1383 (40346 upstream) : C1orf57 (99932 downstream)																							gaatagaagtggcaagagcag	0.000													4	2	---	---	---	---	
FMN2	56776	broad.mit.edu	37	1	240286823	240286823	+	Intron	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:240286823delG	uc010pyd.1	+						FMN2_uc010pye.1_Intron	NM_020066	NP_064450	Q9NZ56	FMN2_HUMAN	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)			aaaaaaaaaagaaagaaaaaa	0.323													4	2	---	---	---	---	
PLD5	200150	broad.mit.edu	37	1	242678500	242678501	+	Intron	DEL	GC	-	-	rs139035471	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:242678500_242678501delGC	uc001hzn.1	-						PLD5_uc001hzo.1_Intron			Q8N7P1	PLD5_HUMAN	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)			ctttgtgtgtgcgtgtgtgtgt	0.000													4	2	---	---	---	---	
EFCAB2	84288	broad.mit.edu	37	1	245131689	245131689	+	5'Flank	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:245131689delA	uc001ibd.2	+						EFCAB2_uc001ibc.2_5'Flank|EFCAB2_uc010pyo.1_5'Flank|EFCAB2_uc010pyp.1_5'Flank|EFCAB2_uc001ibe.2_5'Flank	NR_026586		Q5VUJ9	EFCB2_HUMAN	RecName: Full=EF-hand calcium-binding domain-containing protein 2;								calcium ion binding				0	all_cancers(71;2.93e-06)|all_epithelial(71;2.13e-05)|all_lung(81;0.0337)|Lung NSC(105;0.0472)|Ovarian(71;0.0584)|Breast(184;0.0716)|all_neural(11;0.0982)		OV - Ovarian serous cystadenocarcinoma(106;0.015)			AGGTGACTTCAAAAAGGTCAT	0.209													4	2	---	---	---	---	
EFCAB2	84288	broad.mit.edu	37	1	245273688	245273692	+	Intron	DEL	AAAAC	-	-	rs67801364		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:245273688_245273692delAAAAC	uc001ibd.2	+						EFCAB2_uc010pyp.1_Intron|EFCAB2_uc001ibe.2_Intron	NR_026586		Q5VUJ9	EFCB2_HUMAN	RecName: Full=EF-hand calcium-binding domain-containing protein 2;								calcium ion binding				0	all_cancers(71;2.93e-06)|all_epithelial(71;2.13e-05)|all_lung(81;0.0337)|Lung NSC(105;0.0472)|Ovarian(71;0.0584)|Breast(184;0.0716)|all_neural(11;0.0982)		OV - Ovarian serous cystadenocarcinoma(106;0.015)			tccttctcaaaaaacaaaacaaaac	0.107													4	3	---	---	---	---	
SMYD3	64754	broad.mit.edu	37	1	246023449	246023454	+	Intron	DEL	CAGTGC	-	-	rs68052983		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr1:246023449_246023454delCAGTGC	uc001ibl.2	-						SMYD3_uc001ibk.2_Intron|SMYD3_uc001ibi.2_Intron|SMYD3_uc001ibj.2_Intron	NM_022743	NP_073580	Q9H7B4	SMYD3_HUMAN	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)		TGACTGAACTCAGTGCCCCCTTCGTG	0.539													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	434782	434783	+	IGR	DEL	TC	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:434782_434783delTC								FAM150B (146474 upstream) : TMEM18 (233192 downstream)																							tttctttctttctctttctttt	0.005													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	827002	827002	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:827002delT	uc002qwn.1	-						uc002qwo.1_Intron					Homo sapiens cDNA clone IMAGE:5174186.																		GCCCTTTCCATTATCCCGAGC	0.582													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	7629162	7629163	+	IGR	INS	-	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:7629162_7629163insG								RNF144A (444855 upstream) : LOC339788 (433395 downstream)																							aaaggaagggaggaaggaagga	0.000													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	8538608	8538609	+	IGR	INS	-	ACATGC	ACATGC	rs140901565	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:8538608_8538609insACATGC								LOC339788 (421631 upstream) : ID2 (280731 downstream)																							tgcacacacgtacatgcacaca	0.000													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	14860414	14860415	+	IGR	DEL	AC	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:14860414_14860415delAC								FAM84A (69481 upstream) : NBAS (446617 downstream)																							tctcacacgtacacacacacac	0.267													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	20345644	20345645	+	IGR	DEL	TC	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:20345644_20345645delTC								LAPTM4A (93855 upstream) : SDC1 (54913 downstream)																							GGACACAGGGTCTCTCCAAAAG	0.599													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	25261272	25261272	+	RNA	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:25261272delT	uc002rfv.2	+	3		c.3368delT								Homo sapiens cDNA FLJ45127 fis, clone BRAWH3036951.																		tgtatttttatttttttgaga	0.000													4	2	---	---	---	---	
SLC30A3	7781	broad.mit.edu	37	2	27489852	27489852	+	Intron	DEL	C	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:27489852delC	uc010ylh.1	-							NM_003459	NP_003450	Q99726	ZNT3_HUMAN	solute carrier family 30 (zinc transporter),						regulation of sequestering of zinc ion	cell junction|integral to plasma membrane|late endosome|membrane fraction|synaptic vesicle membrane	zinc transporting ATPase activity				0	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					cacatgtcagcttgacatccc	0.000													3	3	---	---	---	---	
ALK	238	broad.mit.edu	37	2	30055434	30055434	+	Intron	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:30055434delG	uc002rmy.2	-							NM_004304	NP_004295	Q9UM73	ALK_HUMAN	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)	CTATGTATGTGGGTATTTTGC	0.473			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				4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	35121308	35121309	+	IGR	DEL	CT	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:35121308_35121309delCT								None (None upstream) : None (None downstream)																							ctctccctgcctctctctctct	0.163													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	35870690	35870691	+	IGR	INS	-	TAATT	TAATT	rs142183874	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:35870690_35870691insTAATT								None (None upstream) : CRIM1 (712706 downstream)																							tgttgagaatctgtctgcgttc	0.000													4	3	---	---	---	---	
THADA	63892	broad.mit.edu	37	2	43771136	43771136	+	Intron	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:43771136delG	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	Q6YHU6	THADA_HUMAN	thyroid adenoma associated								binding			ovary(2)|skin(1)	3		Acute lymphoblastic leukemia(82;0.00361)|all_hematologic(82;0.00837)				gggtttttatggttttaggtc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	45550220	45550220	+	IGR	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:45550220delG								SIX2 (313677 upstream) : SRBD1 (65600 downstream)																							GGAATCAGGTGGGGGGACGAT	0.453													4	2	---	---	---	---	
TTC7A	57217	broad.mit.edu	37	2	47178451	47178452	+	Intron	INS	-	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:47178451_47178452insA	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	Q9ULT0	TTC7A_HUMAN	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)			gcaattaagagaaaaaaaaaaa	0.089													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	49715916	49715917	+	IGR	DEL	AT	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:49715916_49715917delAT								FSHR (334286 upstream) : NRXN1 (429727 downstream)																							gttatacgacatatatatatat	0.000													4	2	---	---	---	---	
NRXN1	9378	broad.mit.edu	37	2	51092719	51092720	+	Intron	DEL	TG	-	-	rs72232277		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:51092719_51092720delTG	uc010fbq.2	-						NRXN1_uc002rxe.3_Intron	NM_001135659	NP_001129131	P58400	NRX1B_HUMAN	neurexin 1 isoform alpha2 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)			AATATATAAAtgtgtgtgtgtg	0.149													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	53484415	53484415	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:53484415delA								None (None upstream) : ASB3 (412703 downstream)																							actccgtctcaaaaaaaaaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	62454382	62454382	+	IGR	DEL	A	-	-	rs80195694		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:62454382delA								B3GNT2 (2518 upstream) : TMEM17 (272974 downstream)																							ctcaaaaaagaaaaaaaaaaG	0.209													4	2	---	---	---	---	
TACR1	6869	broad.mit.edu	37	2	75296690	75296690	+	Intron	DEL	A	-	-	rs113561222		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:75296690delA	uc002sng.2	-						TACR1_uc002snh.2_Intron	NM_001058	NP_001049	P25103	NK1R_HUMAN	tachykinin receptor 1 isoform long						activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|detection of abiotic stimulus|mechanosensory behavior	integral to plasma membrane	protein binding			ovary(1)	1					Aprepitant(DB00673)|Ketamine(DB01221)|Vapreotide(DB04894)	agatatccttagtttttctct	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	76536938	76536938	+	IGR	DEL	C	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:76536938delC								C2orf3 (598827 upstream) : LRRTM4 (437920 downstream)																							TTTGAGGAGTCCTTTTTCTGG	0.323													3	3	---	---	---	---	
CTNNA2	1496	broad.mit.edu	37	2	80671072	80671072	+	Intron	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:80671072delA	uc010ysh.1	+						CTNNA2_uc010yse.1_Intron|CTNNA2_uc010ysf.1_Intron|CTNNA2_uc010ysg.1_Intron|CTNNA2_uc010ysi.1_Intron	NM_004389	NP_004380	P26232	CTNA2_HUMAN	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						AATGCCTTGTAAAGTGGGTTA	0.284													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	84299891	84299892	+	IGR	INS	-	GC	GC			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:84299891_84299892insGC								None (None upstream) : FUNDC2P2 (217914 downstream)																							TCTCtgtgtgtgtgtgtgtgtg	0.342													4	2	---	---	---	---	
FLJ40330	645784	broad.mit.edu	37	2	89077508	89077508	+	Intron	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:89077508delG	uc002stf.2	+						FLJ40330_uc010fhf.2_Intron|FLJ40330_uc010fhg.2_Intron|FLJ40330_uc010fhh.2_Intron					Homo sapiens mRNA; cDNA DKFZp434J1630 (from clone DKFZp434J1630).												0						ttgtggttttgatttgcattt	0.000													4	2	---	---	---	---	
LOC654342	654342	broad.mit.edu	37	2	91832259	91832259	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:91832259delT	uc002sts.3	-						LOC654342_uc002stt.2_Intron|LOC654342_uc010yub.1_Intron					Homo sapiens cDNA clone IMAGE:4801360.												0						CTTCCttttgttttttttttc	0.204													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	92123584	92123585	+	IGR	DEL	CA	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:92123584_92123585delCA								GGT8P (153431 upstream) : FKSG73 (5574 downstream)																							aagagcatagcacacacacaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	92263645	92263645	+	IGR	DEL	G	-	-	rs142548000		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:92263645delG								FKSG73 (133151 upstream) : None (None downstream)																							agaaaagggagggagaaagca	0.045													5	4	---	---	---	---	
FAM178B	51252	broad.mit.edu	37	2	97653120	97653121	+	5'Flank	DEL	AC	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:97653120_97653121delAC	uc002sxl.3	-							NM_001122646	NP_001116118	Q8IXR5	F178B_HUMAN	hypothetical protein LOC51252 isoform A												0						cccatctcTAacacacacacac	0.005													4	2	---	---	---	---	
AFF3	3899	broad.mit.edu	37	2	100254540	100254541	+	Intron	INS	-	T	T	rs11401722		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:100254540_100254541insT	uc002tag.2	-						AFF3_uc002taf.2_Intron|AFF3_uc010fiq.1_Intron|AFF3_uc010yvr.1_Intron|AFF3_uc002tah.1_Intron	NM_002285	NP_002276	P51826	AFF3_HUMAN	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						CAGAACCAGTAttttttttttt	0.208													4	2	---	---	---	---	
IL1RL2	8808	broad.mit.edu	37	2	102851246	102851247	+	Intron	INS	-	A	A	rs72526182		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:102851246_102851247insA	uc002tbs.2	+						IL1RL2_uc002tbt.2_Intron	NM_003854	NP_003845	Q9HB29	ILRL2_HUMAN	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						gacttcacttcaaaaaaaaaaa	0.183													4	2	---	---	---	---	
SH3RF3	344558	broad.mit.edu	37	2	109787371	109787371	+	Intron	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:109787371delA	uc010ywt.1	+							NM_001099289	NP_001092759	Q8TEJ3	SH3R3_HUMAN	SH3 domain containing ring finger 3								zinc ion binding			ovary(1)	1						TCACCTCACTAAGCAGCTGTT	0.532													4	2	---	---	---	---	
MERTK	10461	broad.mit.edu	37	2	112716235	112716235	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:112716235delT	uc002thk.1	+						MERTK_uc002thl.1_Intron	NM_006343	NP_006334	Q12866	MERTK_HUMAN	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						CTATAGATTGTTTTTTTGACC	0.408													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	122969374	122969376	+	IGR	DEL	CTT	-	-	rs112372348		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:122969374_122969376delCTT								TSN (443948 upstream) : None (None downstream)																							tctccttctccttcttcttcttc	0.133													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	124324248	124324248	+	IGR	DEL	A	-	-	rs77146607		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:124324248delA								None (None upstream) : CNTNAP5 (458616 downstream)																							tgtgtgggggaaaaaaaaccc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	126317804	126317805	+	IGR	DEL	AC	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:126317804_126317805delAC								CNTNAP5 (644943 upstream) : None (None downstream)																							TTcacacacaacacacacacac	0.198													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	127578835	127578836	+	IGR	INS	-	T	T	rs147451801	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:127578835_127578836insT								GYPC (124590 upstream) : BIN1 (226771 downstream)																							AGAAAATGCACGTGGATTACAC	0.411													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	133024653	133024660	+	IGR	DEL	AGAAACAA	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:133024653_133024660delAGAAACAA								NCRNA00164 (9111 upstream) : GPR39 (149487 downstream)																							acggacagagagaaacaaagagagagag	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	133029926	133029932	+	IGR	DEL	CTGAAAT	-	-	rs71966065		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:133029926_133029932delCTGAAAT								NCRNA00164 (14384 upstream) : GPR39 (144215 downstream)																							CTTTTAAAGGCTGAAATCCcggtggtt	0.275													3	3	---	---	---	---	
HNMT	3176	broad.mit.edu	37	2	138747047	138747047	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:138747047delT	uc002tvc.2	+						HNMT_uc002tvf.2_Intron	NM_006895	NP_008826	P50135	HNMT_HUMAN	histamine N-methyltransferase isoform 1						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)	ttgtttgttcttttacttatc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	139561017	139561017	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:139561017delT								NXPH2 (23206 upstream) : None (None downstream)																							TGCCTTCCTCTAGGATGACTA	0.413													4	2	---	---	---	---	
KCNJ3	3760	broad.mit.edu	37	2	155559655	155559656	+	Intron	INS	-	C	C	rs145380315	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:155559655_155559656insC	uc002tyv.1	+						KCNJ3_uc010zce.1_Intron	NM_002239	NP_002230	P48549	IRK3_HUMAN	potassium inwardly-rectifying channel J3						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)	ATTCTTTGATAACTGTTCGAGA	0.302													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	156510113	156510118	+	IGR	DEL	ATACAC	-	-	rs144440244		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:156510113_156510118delATACAC								KCNJ3 (797099 upstream) : NR4A2 (670828 downstream)																							acacacacatatacacacacacacac	0.306													4	2	---	---	---	---	
CYTIP	9595	broad.mit.edu	37	2	158347434	158347435	+	5'Flank	DEL	AC	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:158347434_158347435delAC	uc010zcl.1	-							NM_004288	NP_004279	O60759	CYTIP_HUMAN	cytohesin 1 interacting protein						regulation of cell adhesion	cell cortex|early endosome	protein binding			ovary(1)|kidney(1)|skin(1)	3						acagacacagacacacacacac	0.297													4	2	---	---	---	---	
PKP4	8502	broad.mit.edu	37	2	159481186	159481187	+	Intron	INS	-	A	A	rs71974509		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:159481186_159481187insA	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_Intron	NM_003628	NP_003619	Q99569	PKP4_HUMAN	plakophilin 4 isoform a						cell adhesion	desmosome	protein binding			ovary(5)|skin(2)	7						TTTAAACCACCAAAAAAAAAAA	0.277										HNSCC(62;0.18)			4	2	---	---	---	---	
BAZ2B	29994	broad.mit.edu	37	2	160335607	160335607	+	Intron	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:160335607delA	uc002uao.2	-						BAZ2B_uc002uap.2_Intron|BAZ2B_uc002uas.1_Intron|BAZ2B_uc002uau.1_Intron|BAZ2B_uc002uat.3_Intron|BAZ2B_uc010fop.1_Intron	NM_013450	NP_038478	Q9UIF8	BAZ2B_HUMAN	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						ATGAATAATTAAAAAAAAACA	0.348													4	2	---	---	---	---	
SLC4A10	57282	broad.mit.edu	37	2	162526763	162526763	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:162526763delT	uc002ubx.3	+						SLC4A10_uc010fpa.1_Intron|SLC4A10_uc010zcr.1_Intron|SLC4A10_uc002uby.3_Intron|SLC4A10_uc010zcs.1_Intron	NM_022058	NP_071341	Q6U841	S4A10_HUMAN	solute carrier family 4, sodium bicarbonate						bicarbonate transport|chloride transport|sodium ion transport	integral to membrane|plasma membrane	inorganic anion exchanger activity|symporter activity			ovary(2)|lung(2)|pancreas(1)	5						CTCCCtttccttttttttctc	0.229													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	164664598	164664599	+	IGR	INS	-	CAGTT	CAGTT	rs143820024	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:164664598_164664599insCAGTT								FIGN (72085 upstream) : GRB14 (684734 downstream)																							cctttatccgacaggaaatggg	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	175553776	175553777	+	Intron	DEL	CA	-	-	rs34732358		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:175553776_175553777delCA	uc002uiw.2	+											Homo sapiens cDNA FLJ11228 fis, clone PLACE1008329.																		agatggaagccacagtcttttt	0.000													3	3	---	---	---	---	
OSBPL6	114880	broad.mit.edu	37	2	179101565	179101566	+	Intron	INS	-	CT	CT			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179101565_179101566insCT	uc002ulx.2	+						OSBPL6_uc002ulw.2_Intron|OSBPL6_uc002uly.2_Intron|OSBPL6_uc010zfe.1_Intron	NM_032523	NP_115912	Q9BZF3	OSBL6_HUMAN	oxysterol-binding protein-like protein 6 isoform						lipid transport		lipid binding			pancreas(1)	1			OV - Ovarian serous cystadenocarcinoma(117;0.00578)|Epithelial(96;0.00847)|all cancers(119;0.0335)			GCTCCCTATCACTCTTTCTCTT	0.416													4	2	---	---	---	---	
TTN	7273	broad.mit.edu	37	2	179625576	179625577	+	Intron	DEL	GT	-	-	rs146296588		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:179625576_179625577delGT	uc010zfg.1	-						TTN_uc010zfh.1_Intron|TTN_uc010zfi.1_Intron|TTN_uc010zfj.1_Intron|TTN_uc002umz.1_Intron|TTN_uc002unb.2_Intron	NM_133378	NP_596869	Q8WZ42	TITIN_HUMAN	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)			GTGTGAAGGGgtgtgtgtgtgt	0.332													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	180982149	180982150	+	IGR	DEL	GT	-	-	rs149954463	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:180982149_180982150delGT								CWC22 (110309 upstream) : UBE2E3 (862962 downstream)																							CTATTTAATAGTAGGGTTCCCA	0.391													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	186718194	186718195	+	IGR	INS	-	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:186718194_186718195insA								ZNF804A (913982 upstream) : ZC3H15 (632690 downstream)																							gacttcatctcaaaaaaaaaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	188698288	188698289	+	IGR	INS	-	AAACA	AAACA			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:188698288_188698289insAAACA								TFPI (279069 upstream) : GULP1 (458315 downstream)																							gaatctgtctcaaacaaaacaa	0.050													4	2	---	---	---	---	
MFSD6	54842	broad.mit.edu	37	2	191332103	191332103	+	Intron	DEL	C	-	-	rs144774103		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:191332103delC	uc002urz.2	+						MFSD6_uc010zge.1_5'Flank	NM_017694	NP_060164	Q6ZSS7	MFSD6_HUMAN	major facilitator superfamily domain containing						transmembrane transport	integral to membrane				ovary(2)	2						ttttgggaggccgaggtgggc	0.020													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	193249060	193249060	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:193249060delA								TMEFF2 (189416 upstream) : PCGEM1 (365511 downstream)																							cccactctccaaaaggcccct	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	194564786	194564786	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:194564786delT								PCGEM1 (923165 upstream) : None (None downstream)																							AAATGGATGATAATAATATAA	0.274													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	209812565	209812565	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:209812565delT								PTH2R (107747 upstream) : MAP2 (476206 downstream)																							CTCTCTCTTCTTTTGCTCCTC	0.328													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	214089371	214089372	+	IGR	DEL	AC	-	-	rs62186590		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:214089371_214089372delAC								IKZF2 (73038 upstream) : SPAG16 (59744 downstream)																							CTATTACAAAacacacacacac	0.337													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	231528724	231528724	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:231528724delA								SP100 (118407 upstream) : CAB39 (48833 downstream)																							aaaataaaacaaaaaaaaaag	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	2	240550374	240550374	+	IGR	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr2:240550374delG								HDAC4 (227028 upstream) : NDUFA10 (349784 downstream)																							ATGGTCAGCCGCATCTCTGCA	0.323													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	1870987	1870988	+	IGR	DEL	CT	-	-	rs35611475		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:1870987_1870988delCT								CNTN6 (425710 upstream) : CNTN4 (269562 downstream)																							ATTTTGAACACTCTCTGTTTCT	0.386													4	4	---	---	---	---	
HRH1	3269	broad.mit.edu	37	3	11284600	11284601	+	Intron	INS	-	T	T	rs145728245	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:11284600_11284601insT	uc010hdr.2	+						HRH1_uc010hds.2_Intron|HRH1_uc010hdt.2_Intron	NM_001098213	NP_001091683	P35367	HRH1_HUMAN	histamine receptor H1						activation of phospholipase C activity by G-protein coupled receptor protein signaling pathway coupled to IP3 second messenger|inflammatory response	cytoplasm|integral to plasma membrane|nucleus	histamine receptor activity			large_intestine(1)|ovary(1)	2					Aceprometazine(DB01615)|Astemizole(DB00637)|Azatadine(DB00719)|Azelastine(DB00972)|Benzquinamide(DB00767)|Bepotastine(DB04890)|Bromodiphenhydramine(DB01237)|Brompheniramine(DB00835)|Buclizine(DB00354)|Carbinoxamine(DB00748)|Cetirizine(DB00341)|Chlophedianol(DB04837)|Chlorpheniramine(DB01114)|Chlorprothixene(DB01239)|Cinnarizine(DB00568)|Clemastine(DB00283)|Clozapine(DB00363)|Cyclizine(DB01176)|Cyproheptadine(DB00434)|Desipramine(DB01151)|Desloratadine(DB00967)|Dexbrompheniramine(DB00405)|Dimenhydrinate(DB00985)|Diphenhydramine(DB01075)|Diphenylpyraline(DB01146)|Doxepin(DB01142)|Doxylamine(DB00366)|Emedastine(DB01084)|Epinastine(DB00751)|Fexofenadine(DB00950)|Flunarizine(DB04841)|Histamine Phosphate(DB00667)|Hydroxyzine(DB00557)|Ketotifen(DB00920)|Levocabastine(DB01106)|Loratadine(DB00455)|Maprotiline(DB00934)|Meclizine(DB00737)|Mequitazine(DB01071)|Methdilazine(DB00902)|Methotrimeprazine(DB01403)|Mianserin(DB06148)|Mirtazapine(DB00370)|Nedocromil(DB00716)|Olanzapine(DB00334)|Olopatadine(DB00768)|Orphenadrine(DB01173)|Pemirolast(DB00885)|Phenindamine(DB01619)|Pheniramine(DB01620)|Prochlorperazine(DB00433)|Promazine(DB00420)|Promethazine(DB01069)|Propiomazine(DB00777)|Quetiapine(DB01224)|Risperidone(DB00734)|Terfenadine(DB00342)|Thiethylperazine(DB00372)|Trazodone(DB00656)|Trimeprazine(DB01246)|Tripelennamine(DB00792)|Triprolidine(DB00427)|Ziprasidone(DB00246)	TTGGGTCTCTCttttttttttc	0.198													4	2	---	---	---	---	
TGFBR2	7048	broad.mit.edu	37	3	30678225	30678226	+	Intron	INS	-	GT	GT	rs145753738	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:30678225_30678226insGT	uc003ceo.2	+						TGFBR2_uc003cen.2_Intron	NM_003242	NP_003233	P37173	TGFR2_HUMAN	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						tgtgtgtgcacgtgtgtgtgtg	0.193													4	2	---	---	---	---	
GADL1	339896	broad.mit.edu	37	3	30799908	30799909	+	Intron	INS	-	TTT	TTT	rs140177086	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:30799908_30799909insTTT	uc003cep.2	-							NM_207359	NP_997242	Q6ZQY3	GADL1_HUMAN	glutamate decarboxylase-like 1						carboxylic acid metabolic process		carboxy-lyase activity|pyridoxal phosphate binding				0					Pyridoxal Phosphate(DB00114)	TGCCTTTTATCTTTCCCGTCTT	0.441													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	40817178	40817179	+	IGR	DEL	GC	-	-	rs146446946	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:40817178_40817179delGC								ZNF621 (236135 upstream) : CTNNB1 (419222 downstream)																							gtgtgtgtgtgCGCGCATTTga	0.188													4	2	---	---	---	---	
SLMAP	7871	broad.mit.edu	37	3	57877305	57877305	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:57877305delT	uc003dje.1	+						SLMAP_uc003djc.1_Intron|SLMAP_uc003djd.1_Intron|SLMAP_uc003djf.1_Intron|SLMAP_uc003djg.1_Intron|SLMAP_uc011bez.1_Intron|SLMAP_uc011bfa.1_Intron|SLMAP_uc003djh.2_Intron|SLMAP_uc003dji.1_Intron	NM_007159	NP_009090	Q14BN4	SLMAP_HUMAN	sarcolemma associated protein						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)		tttttaacccttttttttttt	0.065													3	3	---	---	---	---	
ABHD6	57406	broad.mit.edu	37	3	58244416	58244416	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:58244416delT	uc003djs.3	+						ABHD6_uc003djr.2_Intron|ABHD6_uc003djt.3_Intron	NM_020676	NP_065727	Q9BV23	ABHD6_HUMAN	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)		CGTAGAAGAGTCCAGAGAGGG	0.483													4	2	---	---	---	---	
PXK	54899	broad.mit.edu	37	3	58405637	58405640	+	Intron	DEL	TAAG	-	-	rs66520518		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:58405637_58405640delTAAG	uc003djz.1	+						PXK_uc003djx.1_Intron|PXK_uc003djy.1_Intron|PXK_uc003dka.1_Intron|PXK_uc003dkb.1_Intron|PXK_uc003dkc.1_Intron|PXK_uc011bfe.1_Intron|PXK_uc010hnj.1_Intron|PXK_uc003dkd.1_Intron|PXK_uc010hnk.1_Intron	NM_017771	NP_060241	Q7Z7A4	PXK_HUMAN	PX domain containing serine/threonine kinase						cell communication|inflammatory response|negative regulation of ATPase activity|negative regulation of ion transport|regulation of synaptic transmission	centrosome|cytoplasm|nucleus|plasma membrane	actin binding|ATP binding|phosphatidylinositol binding|phosphatidylinositol binding|protein C-terminus binding|protein kinase activity			ovary(1)	1				BRCA - Breast invasive adenocarcinoma(55;0.000249)|KIRC - Kidney renal clear cell carcinoma(10;0.00346)|Kidney(10;0.00368)|OV - Ovarian serous cystadenocarcinoma(275;0.22)		TTTATGGCCTTAAGTAAGTTTCAC	0.485													1	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	75992395	75992395	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:75992395delA								ZNF717 (157725 upstream) : None (None downstream)																							CAATAGTAACAAAAAAATCTT	0.239													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	89661519	89661520	+	IGR	INS	-	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:89661519_89661520insC								EPHA3 (130237 upstream) : None (None downstream)																							cttccttccttccttccttcct	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	95640938	95640939	+	IGR	DEL	AC	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:95640938_95640939delAC								LOC255025 (745859 upstream) : EPHA6 (892486 downstream)																							GTCACTGAAAacacacacacac	0.257													4	2	---	---	---	---	
EPHA6	285220	broad.mit.edu	37	3	96781191	96781192	+	Intron	INS	-	A	A	rs144944104	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:96781191_96781192insA	uc010how.1	+						EPHA6_uc003drp.1_Intron	NM_001080448	NP_001073917	Q9UF33	EPHA6_HUMAN	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						taaagatgactaaatagcagaa	0.000													4	3	---	---	---	---	
ABI3BP	25890	broad.mit.edu	37	3	100518477	100518477	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:100518477delT	uc003dun.2	-						ABI3BP_uc003duj.2_Intron|ABI3BP_uc003duk.2_Intron|ABI3BP_uc003dul.2_Intron|ABI3BP_uc011bhd.1_Intron|ABI3BP_uc003dum.2_Intron	NM_015429	NP_056244	Q7Z7G0	TARSH_HUMAN	ABI gene family, member 3 (NESH) binding protein							extracellular space				ovary(2)|large_intestine(1)|haematopoietic_and_lymphoid_tissue(1)	4						TTCTTAGGCCTTTTCCTGCCT	0.423													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	104782224	104782224	+	IGR	DEL	T	-	-	rs74358050		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:104782224delT								None (None upstream) : ALCAM (303489 downstream)																							ATCTTTTCTATTTTTTTTTTC	0.323													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	109531738	109531738	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:109531738delT								FLJ25363 (317724 upstream) : None (None downstream)																							gttgataaccttttttttttt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	117271070	117271071	+	IGR	DEL	CT	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:117271070_117271071delCT								LOC285194 (835185 upstream) : None (None downstream)																							CAGTCATACGctctctctctct	0.158													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	127290855	127290856	+	IGR	DEL	CT	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:127290855_127290856delCT								PLXNA1 (534627 upstream) : TPRA1 (1052 downstream)																							CTTGCCTTCCCTGATTACCAGG	0.574													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	138538814	138538817	+	IGR	DEL	TCGA	-	-	rs6791447	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:138538814_138538817delTCGA								PIK3CB (60629 upstream) : FOXL2 (124250 downstream)																							agactctgtctcgatcaatcaatc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	139030954	139030955	+	IGR	DEL	TG	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:139030954_139030955delTG								PISRT1 (78590 upstream) : MRPS22 (31843 downstream)																							ATtgtgtgcctgtgtgtgtgtg	0.396													4	2	---	---	---	---	
RASA2	5922	broad.mit.edu	37	3	141324598	141324598	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:141324598delT	uc003etz.1	+						RASA2_uc010huq.1_Intron|RASA2_uc003eua.1_Intron	NM_006506	NP_006497	Q15283	RASA2_HUMAN	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						TAACTGGTGATTTTTTTTTTT	0.383													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	141336833	141336834	+	IGR	DEL	AG	-	-	rs10589233		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:141336833_141336834delAG								RASA2 (5636 upstream) : RNF7 (120217 downstream)																							ttttcaacaaagacctgaagaa	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	158473204	158473204	+	IGR	DEL	C	-	-	rs11352614		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:158473204delC								RARRES1 (22929 upstream) : MFSD1 (46708 downstream)																							tccctggcagccactgatcct	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	163902546	163902547	+	IGR	INS	-	GA	GA			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:163902546_163902547insGA								MIR1263 (13202 upstream) : MIR720 (156582 downstream)																							caaggcaggaggagagagagag	0.000													3	3	---	---	---	---	
CLDN11	5010	broad.mit.edu	37	3	170510089	170510090	+	Intron	DEL	CC	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:170510089_170510090delCC	uc011bpt.1	+							NM_005602	NP_005593	O75508	CLD11_HUMAN	claudin 11						calcium-independent cell-cell adhesion	integral to membrane|tight junction	identical protein binding|structural molecule activity			central_nervous_system(1)	1	all_cancers(22;5.62e-23)|all_epithelial(15;7.54e-28)|all_lung(20;2.51e-17)|Lung NSC(18;1.02e-16)|Ovarian(172;0.000567)|Breast(254;0.137)		Lung(28;2.71e-13)|STAD - Stomach adenocarcinoma(35;0.197)			AAAGGGGAGGCCCAAGGAGGGG	0.495													4	2	---	---	---	---	
DGKG	1608	broad.mit.edu	37	3	186014917	186014918	+	Intron	DEL	TT	-	-	rs67629634		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:186014917_186014918delTT	uc003fqa.2	-						DGKG_uc003fqb.2_Intron|DGKG_uc003fqc.2_Intron|DGKG_uc011brx.1_Intron	NM_001346	NP_001337	P49619	DGKG_HUMAN	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)	GGCTCTCCACTTTTTCTGGGCA	0.411													1	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	194268444	194268445	+	IGR	DEL	TG	-	-	rs63239161		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:194268444_194268445delTG								ATP13A3 (79476 upstream) : TMEM44 (39958 downstream)																							tttgttttgttgtgtgtgtgtg	0.020													3	3	---	---	---	---	
C3orf21	152002	broad.mit.edu	37	3	194808765	194808766	+	Intron	INS	-	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:194808765_194808766insG	uc003fum.3	-						C3orf21_uc003ful.2_Intron|C3orf21_uc003fuk.2_Intron	NM_152531	NP_689744	Q8NBI6	CC021_HUMAN	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)		gagggtcctaccccacggagtc	0.000													4	2	---	---	---	---	
SDHAP2	727956	broad.mit.edu	37	3	195400918	195400919	+	Intron	INS	-	T	T	rs138187538	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:195400918_195400919insT	uc003fuw.2	+						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						AGTCttttttctttttttttga	0.252													8	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	195543307	195543308	+	IGR	INS	-	T	T	rs143572199		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:195543307_195543308insT								MUC4 (4159 upstream) : TNK2 (46928 downstream)																							CCACATCCTCCGCCCAGCCTGG	0.653													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	196281024	196281024	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:196281024delT								C3orf43 (38787 upstream) : WDR53 (37 downstream)																							AACCAGGAGCTTTTTTTTTTA	0.254													9	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	3	196419869	196419869	+	IGR	DEL	C	-	-	rs35332180		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:196419869delC								LRRC33 (30997 upstream) : C3orf34 (13280 downstream)																							GTCTTTTCGGCTGATGACTGA	0.353													3	5	---	---	---	---	
PIGX	54965	broad.mit.edu	37	3	196458053	196458053	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr3:196458053delT	uc010iaj.2	+						PIGX_uc003fwx.3_Intron|PIGX_uc011btx.1_Intron	NM_017861	NP_060331	Q8TBF5	PIGX_HUMAN	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)		GAGATTAGCAttttttttttt	0.154													4	2	---	---	---	---	
ZNF595	152687	broad.mit.edu	37	4	50564	50564	+	5'Flank	DEL	C	-	-	rs112480187		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:50564delC	uc003fzv.1	+						ZNF595_uc003fzu.1_5'Flank|ZNF718_uc003fzt.3_5'Flank|ZNF595_uc010iay.1_5'Flank|ZNF595_uc011bus.1_5'Flank|ZNF595_uc011but.1_5'Flank	NM_182524	NP_872330	Q7Z3I0	Q7Z3I0_HUMAN	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)		TGacttagagccacttagagc	0.159													12	6	---	---	---	---	
ZNF595	152687	broad.mit.edu	37	4	57746	57746	+	Intron	DEL	A	-	-	rs111852468		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:57746delA	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	Q7Z3I0	Q7Z3I0_HUMAN	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)		CTGGAAAAACAAAAGGGTTTT	0.303													7	4	---	---	---	---	
TACC3	10460	broad.mit.edu	37	4	1746125	1746126	+	Intron	INS	-	T	T	rs141214473	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:1746125_1746126insT	uc003gdo.2	+						TACC3_uc003gdp.2_Intron|TACC3_uc010ica.2_Intron	NM_006342	NP_006333	Q9Y6A5	TACC3_HUMAN	transforming, acidic coiled-coil containing							centrosome				ovary(1)|central_nervous_system(1)	2		Breast(71;0.212)|all_epithelial(65;0.241)	OV - Ovarian serous cystadenocarcinoma(23;0.00765)|Epithelial(3;0.0126)			AAAACGGGAGCTACTGGCTCAC	0.614													6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	2448543	2448544	+	Intron	INS	-	ATGG	ATGG	rs145475082	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:2448543_2448544insATGG	uc003gfa.1	+											Homo sapiens cDNA FLJ44040 fis, clone TESTI4028983.																		tgggtggatgaatggatggatg	0.000													6	3	---	---	---	---	
HTT	3064	broad.mit.edu	37	4	3131926	3131926	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:3131926delT	uc011bvq.1	+							NM_002111	NP_002102	P42858	HD_HUMAN	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)		ATAATCATACTTTTTCTTGAT	0.274													11	7	---	---	---	---	
RGS12	6002	broad.mit.edu	37	4	3314643	3314644	+	5'Flank	INS	-	A	A	rs10647468		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:3314643_3314644insA	uc003ggw.2	+						RGS12_uc003ggu.2_Intron|RGS12_uc010ics.1_Intron|RGS12_uc011bvr.1_Intron|RGS12_uc003ggv.2_5'Flank	NM_198229	NP_937872	O14924	RGS12_HUMAN	regulator of G-protein signalling 12 isoform 1							condensed nuclear chromosome|cytoplasm|plasma membrane	GTPase activator activity|receptor signaling protein activity			skin(1)	1				UCEC - Uterine corpus endometrioid carcinoma (64;0.168)		CAGTTTTCTCCAAAAAAAAAAA	0.272													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	3618980	3618982	+	IGR	DEL	CCC	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:3618980_3618982delCCC								LRPAP1 (84756 upstream) : ADRA2C (149093 downstream)																							tccctcccttcccctcccctccc	0.000													3	3	---	---	---	---	
SORCS2	57537	broad.mit.edu	37	4	7450332	7450335	+	Intron	DEL	CCTT	-	-	rs10531260		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:7450332_7450335delCCTT	uc003gkb.3	+						SORCS2_uc011bwi.1_Intron	NM_020777	NP_065828	Q96PQ0	SORC2_HUMAN	VPS10 domain receptor protein SORCS 2 precursor							integral to membrane	neuropeptide receptor activity			ovary(1)|central_nervous_system(1)	2						ttcctctatcccttccttccttcc	0.000													3	5	---	---	---	---	
SORCS2	57537	broad.mit.edu	37	4	7726032	7726034	+	Intron	DEL	TGG	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:7726032_7726034delTGG	uc003gkb.3	+						SORCS2_uc011bwi.1_Intron	NM_020777	NP_065828	Q96PQ0	SORC2_HUMAN	VPS10 domain receptor protein SORCS 2 precursor							integral to membrane	neuropeptide receptor activity			ovary(1)|central_nervous_system(1)	2						atggtgacaatggtggtggtggt	0.000													4	2	---	---	---	---	
SORCS2	57537	broad.mit.edu	37	4	7726610	7726611	+	Intron	INS	-	TGA	TGA			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:7726610_7726611insTGA	uc003gkb.3	+						SORCS2_uc011bwi.1_Intron	NM_020777	NP_065828	Q96PQ0	SORC2_HUMAN	VPS10 domain receptor protein SORCS 2 precursor							integral to membrane	neuropeptide receptor activity			ovary(1)|central_nervous_system(1)	2						ggtgatggtggtggtgttggtg	0.000													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	13282685	13282685	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:13282685delA								None (None upstream) : HSP90AB2P (52352 downstream)																							tccatataccaaaaaaaaaaa	0.000													5	3	---	---	---	---	
KCNIP4	80333	broad.mit.edu	37	4	20730541	20730542	+	3'UTR	INS	-	TGAT	TGAT	rs144623711	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:20730541_20730542insTGAT	uc003gqe.2	-	8					KCNIP4_uc003gqf.1_3'UTR|KCNIP4_uc003gqg.1_3'UTR|KCNIP4_uc003gqh.1_3'UTR|KCNIP4_uc003gqi.1_3'UTR|PACRGL_uc003gpu.2_Intron|PACRGL_uc003gpx.3_Intron|PACRGL_uc003gpw.2_Intron|KCNIP4_uc010iel.2_3'UTR|KCNIP4_uc003gqd.3_3'UTR	NM_147182	NP_671711	Q6PIL6	KCIP4_HUMAN	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)				TTTGGCTAAGATGATTAAAAAT	0.342													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	31947110	31947111	+	IGR	DEL	CT	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:31947110_31947111delCT								PCDH7 (798689 upstream) : None (None downstream)																							cactcatttgctctctctctct	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	32877061	32877062	+	IGR	INS	-	A	A	rs113745645		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:32877061_32877062insA								None (None upstream) : None (None downstream)																							aagtccatctcaaaaaaaaaaa	0.129													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	35845883	35845884	+	IGR	INS	-	AC	AC	rs143956830	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:35845883_35845884insAC								None (None upstream) : ARAP2 (103960 downstream)																							CACAGTCTGTAacacacacaca	0.252													2	5	---	---	---	---	
C4orf19	55286	broad.mit.edu	37	4	37463797	37463797	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:37463797delT	uc003gsw.3	+						uc003gsx.3_5'Flank	NM_001104629	NP_001098099	Q8IY42	CD019_HUMAN	hypothetical protein LOC55286												0						AGTGGGGAAATTTTTTTGGCA	0.239													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	38530657	38530657	+	IGR	DEL	A	-	-	rs71641366		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:38530657delA								TBC1D1 (389864 upstream) : FLJ13197 (83665 downstream)																							accctgtctcaaaaaaaaaaa	0.000													4	3	---	---	---	---	
C4orf34	201895	broad.mit.edu	37	4	39600201	39600202	+	Intron	DEL	AA	-	-	rs10609223		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:39600201_39600202delAA	uc003guo.2	-							NM_174921	NP_777581	Q96QK8	CD034_HUMAN	hypothetical protein LOC201895							integral to membrane	protein binding				0						gttgtatcataaagttgtttag	0.000													3	4	---	---	---	---	
PDS5A	23244	broad.mit.edu	37	4	39929903	39929904	+	Intron	DEL	CA	-	-	rs71969631		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:39929903_39929904delCA	uc003guv.3	-						PDS5A_uc010ifo.2_Intron|PDS5A_uc003guw.3_Intron	NM_001100399	NP_001093869	Q29RF7	PDS5A_HUMAN	PDS5, regulator of cohesion maintenance, homolog						cell division|mitosis|negative regulation of DNA replication	chromatin|nucleus	identical protein binding				0						CCAGACAGTTCACAGTCAACTT	0.337													4	3	---	---	---	---	
RHOH	399	broad.mit.edu	37	4	40197032	40197033	+	5'Flank	INS	-	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:40197032_40197033insC	uc003guz.2	+							NM_004310	NP_004301	Q15669	RHOH_HUMAN	ras homolog gene family, member H precursor						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			ovary(1)|lung(1)	2						cttccttccttccttccctccc	0.109													7	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	40401722	40401722	+	IGR	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:40401722delG								CHRNA9 (44749 upstream) : RBM47 (23550 downstream)																							ggtttagcctggagtctgact	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	42167892	42167892	+	IGR	DEL	C	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:42167892delC								BEND4 (12997 upstream) : SHISA3 (231964 downstream)																							gtctcaaactcctaggctcaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	44010770	44010771	+	IGR	INS	-	T	T	rs113172327		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:44010770_44010771insT								GRXCR1 (978097 upstream) : KCTD8 (165151 downstream)																							taatttttgtatttttttttta	0.000													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	44996441	44996442	+	IGR	INS	-	G	G	rs141086644	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:44996441_44996442insG								GNPDA2 (267829 upstream) : None (None downstream)																							TAGGTCGCTGTGGTCTGCTCCT	0.426													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	49651084	49651084	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:49651084delT								CWH43 (586991 upstream) : None (None downstream)																							tggaatcaactcgagtggaaa	0.000													5	3	---	---	---	---	
CEP135	9662	broad.mit.edu	37	4	56860852	56860853	+	Intron	INS	-	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:56860852_56860853insT	uc003hbi.2	+						CEP135_uc003hbj.2_Intron	NM_025009	NP_079285	Q66GS9	CP135_HUMAN	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)					CAAGCATAATCttttttttttt	0.188													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	64489524	64489527	+	IGR	DEL	TGAG	-	-	rs143548198		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:64489524_64489527delTGAG								None (None upstream) : TECRL (654658 downstream)																							CAAATAACACTGAGTGAGAAAATG	0.343													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	65327515	65327516	+	IGR	INS	-	TG	TG	rs141450556	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:65327515_65327516insTG								TECRL (52337 upstream) : EPHA5 (857766 downstream)																							ccattggtctatgtctattttt	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	66995304	66995304	+	IGR	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:66995304delG								EPHA5 (459651 upstream) : MIR1269 (147238 downstream)																							ACCTTCATCTGGCTGTAAATT	0.443													4	2	---	---	---	---	
STAP1	26228	broad.mit.edu	37	4	68450407	68450409	+	Intron	DEL	AGA	-	-	rs142916997		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:68450407_68450409delAGA	uc003hde.3	+						STAP1_uc003hdf.2_Intron	NM_012108	NP_036240	Q9ULZ2	STAP1_HUMAN	signal transducing adaptor family member 1						cellular membrane fusion|intracellular protein transport	cytoplasm					0						gccttgagatagaagaatgcttg	0.000													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	69171914	69171915	+	IGR	DEL	AT	-	-	rs140805988		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:69171914_69171915delAT								TMPRSS11B (60502 upstream) : YTHDC1 (4191 downstream)																							acacacacacatatatatatca	0.000													3	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	69743412	69743412	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:69743412delA								UGT2B10 (45673 upstream) : UGT2A3 (50765 downstream)																							AAAAAAGAGTAAAAATTGCCT	0.428													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	70139687	70139687	+	IGR	DEL	C	-	-	rs112385000		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:70139687delC								UGT2B11 (59238 upstream) : UGT2B28 (6530 downstream)																							ttgttgataactggaccaaag	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	70418957	70418957	+	IGR	DEL	A	-	-	rs34891192		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:70418957delA								UGT2B4 (27225 upstream) : UGT2A1 (35179 downstream)																							atatcagaagaaaaaaaatca	0.000													3	4	---	---	---	---	
RUFY3	22902	broad.mit.edu	37	4	71608325	71608325	+	Intron	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:71608325delG	uc003hfq.2	+						RUFY3_uc003hfp.3_Intron|RUFY3_uc011cax.1_Intron|RUFY3_uc003hfr.2_Intron|RUFY3_uc011cay.1_Intron	NM_014961	NP_055776	Q7L099	RUFY3_HUMAN	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)			TGCAGAACTTGGAGCTTAAGG	0.274													4	2	---	---	---	---	
BTC	685	broad.mit.edu	37	4	75717976	75717976	+	Intron	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:75717976delA	uc003hig.2	-							NM_001729	NP_001720	P35070	BTC_HUMAN	betacellulin precursor						positive regulation of cell division|positive regulation of cell proliferation	extracellular space|integral to membrane|plasma membrane|soluble fraction	epidermal growth factor receptor binding|growth factor activity			central_nervous_system(1)|skin(1)	2			Lung(101;0.219)			AACTCTACCCAAGCCTCAAGG	0.473													4	2	---	---	---	---	
SHROOM3	57619	broad.mit.edu	37	4	77615519	77615520	+	Intron	DEL	TT	-	-	rs66940946		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:77615519_77615520delTT	uc011cbx.1	+						SHROOM3_uc011cbz.1_Intron	NM_020859	NP_065910	Q8TF72	SHRM3_HUMAN	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)			TTTTTGTTTGTTTTTTTTTGTG	0.327													3	3	---	---	---	---	
ANTXR2	118429	broad.mit.edu	37	4	80935037	80935037	+	Intron	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:80935037delA	uc003hlz.3	-						ANTXR2_uc003hly.3_Intron|ANTXR2_uc003hlx.1_Intron|ANTXR2_uc010ijn.2_Intron	NM_001145794	NP_001139266	P58335	ANTR2_HUMAN	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						TGTCAACCTGAAAAATTGAAT	0.328									Juvenile_Hyaline_Fibromatosis				4	2	---	---	---	---	
ENOPH1	58478	broad.mit.edu	37	4	83376938	83376939	+	Intron	INS	-	A	A	rs75748198		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:83376938_83376939insA	uc003hmv.2	+						ENOPH1_uc003hmw.2_Intron|ENOPH1_uc003hmx.2_Intron	NM_021204	NP_067027	Q9UHY7	ENOPH_HUMAN	enolase-phosphatase 1						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						gattccatctcaaaaaaaaaaa	0.129													4	2	---	---	---	---	
AGPAT9	84803	broad.mit.edu	37	4	84465659	84465659	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:84465659delT	uc003how.2	+						AGPAT9_uc003hox.2_Intron|AGPAT9_uc003hoy.2_Intron	NM_032717	NP_116106	Q53EU6	GPAT3_HUMAN	1-acylglycerol-3-phosphate O-acyltransferase 9						phospholipid biosynthetic process|regulation of TOR signaling cascade|triglyceride biosynthetic process	endoplasmic reticulum membrane|integral to membrane	glycerol-3-phosphate O-acyltransferase activity			skin(1)	1		Hepatocellular(203;0.114)				TGTGGGACAGTTTAAATTAAT	0.378													118	71	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	85478057	85478057	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:85478057delT								NKX6-1 (58670 upstream) : CDS1 (26000 downstream)																							ttggaagccattatcctcagc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	89278952	89278953	+	IGR	INS	-	AG	AG	rs147886561	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:89278952_89278953insAG								PPM1K (73064 upstream) : HERC6 (20938 downstream)																							caggattccacagagagagaga	0.010													3	3	---	---	---	---	
GRID2	2895	broad.mit.edu	37	4	94261028	94261028	+	Intron	DEL	A	-	-	rs34877000		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:94261028delA	uc011cdt.1	+						GRID2_uc011cdu.1_Intron	NM_001510	NP_001501	O43424	GRID2_HUMAN	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)	gccaagggggaaaaaaccctt	0.000													2	4	---	---	---	---	
BANK1	55024	broad.mit.edu	37	4	102677306	102677309	+	Intron	DEL	TGTG	-	-	rs71596344		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:102677306_102677309delTGTG	uc003hvx.3	+							NM_001083907	NP_001077376	Q8NDB2	BANK1_HUMAN	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)		AAAGGAGTATtgtgtgtgtgtgtg	0.294													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	103705941	103705946	+	IGR	DEL	CCTCCT	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:103705941_103705946delCCTCCT								MANBA (23790 upstream) : UBE2D3 (9601 downstream)																							cccaccccaacctcctcctcctcctc	0.000													6	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	104444891	104444903	+	IGR	DEL	CTTTCTTTCTTTC	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:104444891_104444903delCTTTCTTTCTTTC								CENPE (325325 upstream) : TACR3 (65722 downstream)																							cttccttcctctttctttctttctccttccttc	0.066													4	2	---	---	---	---	
SPATA5	166378	broad.mit.edu	37	4	124220273	124220274	+	Intron	DEL	TG	-	-	rs66700040		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:124220273_124220274delTG	uc003iez.3	+							NM_145207	NP_660208	Q8NB90	SPAT5_HUMAN	spermatogenesis associated 5						cell differentiation|multicellular organismal development|spermatogenesis	mitochondrion	ATP binding|nucleoside-triphosphatase activity				0						CATCTGCCAAtgtgtgtgtgtg	0.302													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	124408336	124408337	+	IGR	INS	-	A	A	rs149955538	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:124408336_124408337insA								SPRY1 (83429 upstream) : LOC285419 (163085 downstream)																							acaaaaaatttaaaaaaaaatt	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	124562154	124562161	+	IGR	DEL	GGAAGGAA	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:124562154_124562161delGGAAGGAA								SPRY1 (237247 upstream) : LOC285419 (9261 downstream)																							agggaaggagggaaggaaggaaggaggg	0.048													6	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	128761166	128761166	+	RNA	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:128761166delG	uc003ifn.2	+	1		c.2245delG								Homo sapiens cDNA FLJ33585 fis, clone BRAMY2012163.																		gaggtcaggagtttgagacca	0.095													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	152159176	152159179	+	IGR	DEL	AATA	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:152159176_152159179delAATA								SH3D19 (9994 upstream) : PRSS48 (39146 downstream)																							TGGCAGAAGTAATAAATAAGCCCT	0.412													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	166623385	166623388	+	IGR	DEL	GTAA	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:166623385_166623388delGTAA								CPE (203904 upstream) : TLL1 (171022 downstream)																							atgggtttgcgtaagtaatacaca	0.000													5	5	---	---	---	---	
ANXA10	11199	broad.mit.edu	37	4	169067077	169067077	+	Intron	DEL	T	-	-	rs35715854		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:169067077delT	uc003irm.2	+							NM_007193	NP_009124	Q9UJ72	ANX10_HUMAN	annexin A10								calcium ion binding|calcium-dependent phospholipid binding				0		Prostate(90;0.00876)|Renal(120;0.0183)|all_neural(102;0.0837)|Melanoma(52;0.132)		GBM - Glioblastoma multiforme(119;0.0325)		gttgagtggcttttttttttt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	171542893	171542894	+	IGR	DEL	GT	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:171542893_171542894delGT								AADAT (531521 upstream) : None (None downstream)																							aggaccacaggtgtgtgtgtgt	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	177951367	177951368	+	IGR	INS	-	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:177951367_177951368insT								VEGFC (237472 upstream) : NEIL3 (279623 downstream)																							CTGAGCATTAGttttttttttt	0.178													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	184548560	184548560	+	IGR	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:184548560delG								ING2 (116311 upstream) : RWDD4A (12229 downstream)																							ACTGCAGCAAGTTCAAACCTT	0.398													4	4	---	---	---	---	
KIAA1430	57587	broad.mit.edu	37	4	186121025	186121026	+	Intron	INS	-	G	G	rs143501331	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:186121025_186121026insG	uc003ixf.3	-						KIAA1430_uc003ixg.2_Intron	NM_020827	NP_065878	Q9P2B7	K1430_HUMAN	hypothetical protein LOC57587												0		all_lung(41;1.19e-13)|Lung NSC(41;3.16e-13)|Hepatocellular(41;0.00826)|Colorectal(36;0.00872)|Renal(120;0.00988)|Prostate(90;0.0235)|all_hematologic(60;0.0592)|all_neural(102;0.243)		all cancers(43;9.44e-26)|Epithelial(43;2.64e-23)|OV - Ovarian serous cystadenocarcinoma(60;1.66e-11)|Colorectal(24;6.03e-05)|BRCA - Breast invasive adenocarcinoma(30;8.01e-05)|GBM - Glioblastoma multiforme(59;0.000331)|COAD - Colon adenocarcinoma(29;0.000427)|STAD - Stomach adenocarcinoma(60;0.000777)|LUSC - Lung squamous cell carcinoma(40;0.00924)|READ - Rectum adenocarcinoma(43;0.165)		acaatgtacctggtcacccaat	0.000													3	3	---	---	---	---	
SNX25	83891	broad.mit.edu	37	4	186235194	186235194	+	Intron	DEL	C	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:186235194delC	uc003ixh.2	+						SNX25_uc010ish.2_Intron	NM_031953	NP_114159	Q9H3E2	SNX25_HUMAN	sorting nexin 25						cell communication|protein transport	endosome membrane	phosphatidylinositol binding|signal transducer activity			ovary(2)|breast(2)|pancreas(1)	5		all_lung(41;1.03e-13)|Lung NSC(41;2.5e-13)|Hepatocellular(41;0.00826)|Colorectal(36;0.00886)|Renal(120;0.00988)|Prostate(90;0.0235)|all_hematologic(60;0.0592)|all_neural(102;0.243)		all cancers(43;2.13e-24)|Epithelial(43;6.15e-22)|OV - Ovarian serous cystadenocarcinoma(60;5.6e-11)|BRCA - Breast invasive adenocarcinoma(30;0.00013)|Colorectal(24;0.000165)|GBM - Glioblastoma multiforme(59;0.000357)|COAD - Colon adenocarcinoma(29;0.000887)|STAD - Stomach adenocarcinoma(60;0.00118)|LUSC - Lung squamous cell carcinoma(40;0.0129)|READ - Rectum adenocarcinoma(43;0.228)		gaagaggggtcagtcttgctg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	190199899	190199899	+	IGR	DEL	A	-	-	rs80042426		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:190199899delA								None (None upstream) : FRG1 (662075 downstream)																							GGATTTTTTTAAAAAAGGCAA	0.274													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	190606373	190606376	+	IGR	DEL	AGTT	-	-	rs71961273	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:190606373_190606376delAGTT								None (None upstream) : FRG1 (255598 downstream)																							AAGGAAACACAGTTAGTCCTTCTA	0.431													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	190742571	190742571	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:190742571delT								None (None upstream) : FRG1 (119403 downstream)																							GTGGTTCATGTTTTTAAGGAG	0.443													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	4	190857200	190857201	+	Intron	INS	-	T	T	rs138751788	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:190857200_190857201insT	uc003izq.2	-											Homo sapiens cDNA clone IMAGE:30384438.																		AAACTTGTCCATTTTTTTCCTG	0.332													7	5	---	---	---	---	
FRG1	2483	broad.mit.edu	37	4	190865262	190865270	+	Intron	DEL	GTTGATGGT	-	-	rs112856018	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr4:190865262_190865270delGTTGATGGT	uc003izs.2	+							NM_004477	NP_004468	Q14331	FRG1_HUMAN	FSHD region gene 1						rRNA processing	Cajal body|catalytic step 2 spliceosome|nuclear speck|nucleolus					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;1.73e-30)|Epithelial(3;5.85e-30)|OV - Ovarian serous cystadenocarcinoma(60;5.56e-15)|BRCA - Breast invasive adenocarcinoma(30;9.14e-06)|Lung(3;3.54e-05)|STAD - Stomach adenocarcinoma(60;8.83e-05)|LUSC - Lung squamous cell carcinoma(40;0.000198)|GBM - Glioblastoma multiforme(59;0.00892)|READ - Rectum adenocarcinoma(43;0.161)		cttgccaagagttgatggtgttatcagtc	0.000													4	2	---	---	---	---	
TPPP	11076	broad.mit.edu	37	5	661367	661367	+	3'UTR	DEL	T	-	-	rs13187083		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:661367delT	uc003jbg.3	-	3					TPPP_uc003jbh.3_3'UTR	NM_007030	NP_008961	O94811	TPPP_HUMAN	tubulin polymerization promoting protein						microtubule bundle formation|microtubule polymerization|positive regulation of protein polymerization	nucleus|perinuclear region of cytoplasm|soluble fraction	calcium ion binding|microtubule binding				0		Ovarian(839;0.0563)	Epithelial(17;0.000445)|all cancers(22;0.00176)|OV - Ovarian serous cystadenocarcinoma(19;0.00227)|Lung(60;0.0863)	GBM - Glioblastoma multiforme(108;0.0191)		GTGTCACCCCTGACAGAACCT	0.582													4	2	---	---	---	---	
SLC6A18	348932	broad.mit.edu	37	5	1230076	1230076	+	Intron	DEL	C	-	-	rs151076146	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:1230076delC	uc003jby.1	+							NM_182632	NP_872438	Q96N87	S6A18_HUMAN	solute carrier family 6, member 18						cellular nitrogen compound metabolic process	integral to plasma membrane	amino acid transmembrane transporter activity|neurotransmitter:sodium symporter activity			ovary(1)	1	all_cancers(3;2.99e-16)|Lung NSC(6;8.55e-15)|all_lung(6;7.2e-14)|all_epithelial(6;1.76e-10)		Epithelial(17;0.000356)|all cancers(22;0.00124)|OV - Ovarian serous cystadenocarcinoma(19;0.00239)|Lung(60;0.185)			AGGGCTGTCACGGTGCAGGCT	0.637													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	3324082	3324086	+	IGR	DEL	GTATC	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:3324082_3324086delGTATC								C5orf38 (568570 upstream) : IRX1 (272082 downstream)																							gtgttgtgtggtatctgtggtgtgt	0.015													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	6567028	6567028	+	IGR	DEL	G	-	-	rs11346898		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:6567028delG								UBE2QL1 (74323 upstream) : LOC255167 (15259 downstream)																							GCATGTCCATGTTATGAGGGC	0.463													0	7	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	14102538	14102538	+	IGR	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:14102538delG								DNAH5 (157949 upstream) : TRIO (41291 downstream)																							ctaaagcagagggtcactcag	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	25629720	25629720	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:25629720delA								CDH10 (984809 upstream) : None (None downstream)																							aatttaaaccaaaaatgatca	0.000													4	2	---	---	---	---	
HCN1	348980	broad.mit.edu	37	5	45402916	45402919	+	Intron	DEL	TCCT	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:45402916_45402919delTCCT	uc003jok.2	-							NM_021072	NP_066550	O60741	HCN1_HUMAN	hyperpolarization activated cyclic							integral to membrane	cAMP binding|sodium channel activity|voltage-gated potassium channel activity			ovary(1)	1						ctttctttcctccttccttccttc	0.083													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	49818103	49818103	+	IGR	DEL	A	-	-	rs59520442		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:49818103delA								EMB (80869 upstream) : PARP8 (143630 downstream)																							agtgaaggataggggtggagg	0.000													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	60559163	60559163	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:60559163delA								C5orf43 (100861 upstream) : ZSWIM6 (68937 downstream)																							CACGGGAGGGAAAGGAGGAAA	0.507													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	65688458	65688458	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:65688458delT								SFRS12 (211746 upstream) : MAST4 (203718 downstream)																							accctttctcttttttttttc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	71945821	71945821	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:71945821delT								ZNF366 (142572 upstream) : TNPO1 (166597 downstream)																							tatgtatgtattacaGATGAC	0.159													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	85615102	85615103	+	IGR	INS	-	TCTC	TCTC	rs142094538	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:85615102_85615103insTCTC								NBPF22P (21740 upstream) : COX7C (298681 downstream)																							tcttcttcttttctctctctct	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	97656196	97656197	+	IGR	DEL	CA	-	-	rs7721130		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:97656196_97656197delCA								None (None upstream) : RGMB (448802 downstream)																							acaccacacgcacacacacaca	0.361													5	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	102685609	102685610	+	IGR	INS	-	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:102685609_102685610insA								C5orf30 (71248 upstream) : NUDT12 (198947 downstream)																							CAAATGACCAGAAAAAGTGATC	0.317													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	109215114	109215114	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:109215114delA								MAN2A1 (11685 upstream) : TMEM232 (409820 downstream)																							CAGGAGAAGTAAAAAAAAAAA	0.149													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	113400990	113400990	+	IGR	DEL	C	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:113400990delC								YTHDC2 (470011 upstream) : KCNN2 (297026 downstream)																							gaagctaactccacatctggc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	119743850	119743850	+	IGR	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:119743850delG								FAM170A (772334 upstream) : PRR16 (56169 downstream)																							caataaacctgtttactttgt	0.040													4	2	---	---	---	---	
MYOT	9499	broad.mit.edu	37	5	137093182	137093182	+	Intron	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:137093182delA	uc011cye.1	+							NM_001135940	NP_001129412	Q9UBF9	MYOTI_HUMAN	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)			aggctgaagcaggagaattgc	0.060													4	2	---	---	---	---	
PKD2L2	27039	broad.mit.edu	37	5	137278421	137278421	+	3'UTR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:137278421delA	uc003lby.2	+	15					FAM13B_uc003lbz.2_Intron|FAM13B_uc003lcb.2_Intron|FAM13B_uc003lca.2_Intron	NM_014386	NP_055201	Q9NZM6	PK2L2_HUMAN	polycystic kidney disease 2-like 2							integral to membrane	calcium ion binding|ion channel activity				0			KIRC - Kidney renal clear cell carcinoma(527;0.0101)|Kidney(363;0.0109)			AAATATTTGCAAATCACACTT	0.199													4	2	---	---	---	---	
PCDHB4	56131	broad.mit.edu	37	5	140504116	140504116	+	3'UTR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:140504116delT	uc003lip.1	+	1						NM_018938	NP_061761	Q9Y5E5	PCDB4_HUMAN	protocadherin beta 4 precursor						calcium-dependent cell-cell adhesion|homophilic cell adhesion|synapse assembly|synaptic transmission	cytoplasm|integral to plasma membrane|intermediate filament cytoskeleton	calcium ion binding			upper_aerodigestive_tract(1)|ovary(1)|skin(1)	3			KIRC - Kidney renal clear cell carcinoma(527;0.00185)|Kidney(363;0.00339)			AATTTGTCCCTTTTTTATTGT	0.269													4	2	---	---	---	---	
AFAP1L1	134265	broad.mit.edu	37	5	148688495	148688496	+	Intron	INS	-	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:148688495_148688496insA	uc003lqh.2	+						AFAP1L1_uc003lqg.3_Intron|AFAP1L1_uc010jgy.2_Intron	NM_152406	NP_689619	Q8TED9	AF1L1_HUMAN	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)			ccgtctctaccaaaaaaaaaaa	0.000													4	3	---	---	---	---	
CSF1R	1436	broad.mit.edu	37	5	149476873	149476874	+	Intron	INS	-	AAGGGG	AAGGGG	rs150205315	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:149476873_149476874insAAGGGG	uc003lrm.2	-							NM_005211	NP_005202	P07333	CSF1R_HUMAN	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)	agggaaagggaaaggggaaggg	0.000													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	154921034	154921035	+	IGR	INS	-	A	A	rs145155517	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:154921034_154921035insA								KIF4B (523349 upstream) : SGCD (214028 downstream)																							cttgcttgaatattgccttttc	0.000													4	4	---	---	---	---	
CLINT1	9685	broad.mit.edu	37	5	157241368	157241368	+	Intron	DEL	A	-	-	rs140043015		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:157241368delA	uc003lxj.1	-						CLINT1_uc003lxi.1_Intron|CLINT1_uc011ddv.1_Intron	NM_014666	NP_055481	Q14677	EPN4_HUMAN	epsin 4						endocytosis|post-Golgi vesicle-mediated transport	clathrin-coated vesicle|cytosol|Golgi apparatus|membrane|perinuclear region of cytoplasm	clathrin binding|lipid binding			ovary(2)|pancreas(1)	3	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)			GTAAATGGTTAAAAAAAATAA	0.299													5	3	---	---	---	---	
RNF145	153830	broad.mit.edu	37	5	158631392	158631393	+	Intron	INS	-	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:158631392_158631393insG	uc003lxp.2	-						RNF145_uc011ddy.1_Intron|RNF145_uc003lxo.1_Intron|RNF145_uc011ddz.1_Intron|RNF145_uc010jiq.1_Intron|RNF145_uc011dea.1_Intron	NM_144726	NP_653327	Q96MT1	RN145_HUMAN	ring finger protein 145							integral to membrane	zinc ion binding			ovary(3)|lung(1)|skin(1)	5	Renal(175;0.00196)	Medulloblastoma(196;0.0523)	Kidney(164;7.83e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000525)			CATGATAAGTAGTGGGGGGGGG	0.460													4	2	---	---	---	---	
ODZ2	57451	broad.mit.edu	37	5	167400917	167400917	+	Intron	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:167400917delG	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)		TTGCCATGAAGAGGTGGAAAG	0.398													4	2	---	---	---	---	
STK10	6793	broad.mit.edu	37	5	171520973	171520974	+	Intron	DEL	AT	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:171520973_171520974delAT	uc003mbo.1	-							NM_005990	NP_005981	O94804	STK10_HUMAN	serine/threonine kinase 10								ATP binding|protein serine/threonine kinase activity			ovary(3)|lung(2)|testis(1)|breast(1)|pancreas(1)	8	Renal(175;0.000159)|Lung NSC(126;0.0056)|all_lung(126;0.0094)	Medulloblastoma(196;0.00868)|all_neural(177;0.026)	Kidney(164;7.24e-05)|KIRC - Kidney renal clear cell carcinoma(164;0.000516)			GTCTAGaaaaatatatatatat	0.490													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	5	177407579	177407580	+	IGR	INS	-	GA	GA	rs140584043	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:177407579_177407580insGA								LOC728554 (96312 upstream) : PROP1 (11656 downstream)																							TGTGTGTGTGTGACACACAGAG	0.386													4	2	---	---	---	---	
COL23A1	91522	broad.mit.edu	37	5	177997039	177997039	+	Intron	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr5:177997039delA	uc003mje.2	-							NM_173465	NP_775736	Q86Y22	CONA1_HUMAN	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)		catgttccctagggagcggga	0.000													4	2	---	---	---	---	
LOC285780	285780	broad.mit.edu	37	6	6576577	6576578	+	Intron	INS	-	A	A	rs145545097	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:6576577_6576578insA	uc003mww.3	-						LOC285780_uc003mwx.2_Intron	NR_026970				Homo sapiens cDNA FLJ33708 fis, clone BRAWH2007862.												0						gctaacatagcaaagggctagc	0.000													1	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	8823651	8823652	+	IGR	DEL	TG	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:8823651_8823652delTG								HULC (169574 upstream) : None (None downstream)																							attgttttaatgtgtgtgtgtg	0.030													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	11431673	11431673	+	Intron	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:11431673delA	uc003mzy.2	+											Homo sapiens cDNA clone IMAGE:4812340.																		tcggtctcagaaaaaaaaaaa	0.259													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	12185546	12185546	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:12185546delA								HIVEP1 (20315 upstream) : EDN1 (104983 downstream)																							tgacgcagctataatttttga	0.040													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	15125363	15125374	+	IGR	DEL	AAGGAAGGAAGG	-	-	rs72365415	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:15125363_15125374delAAGGAAGGAAGG								CD83 (988217 upstream) : JARID2 (120360 downstream)																							aaaagaaagaaaggaaggaaggaaggaaggaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	21337585	21337590	+	IGR	DEL	CTTCTC	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:21337585_21337590delCTTCTC								CDKAL1 (104953 upstream) : SOX4 (256382 downstream)																							tccttctcttcttctccttcttcttt	0.000													5	3	---	---	---	---	
KAAG1	353219	broad.mit.edu	37	6	24358357	24358358	+	3'UTR	DEL	CA	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:24358357_24358358delCA	uc003ndz.1	+	1					DCDC2_uc003ndx.2_5'Flank|DCDC2_uc003ndy.2_Intron	NM_181337	NP_851854	Q9UBP8	KAAG1_HUMAN	kidney associated antigen 1						immune response						0						GAGGAGGacgcacacacacaca	0.446													4	2	---	---	---	---	
BAK1	578	broad.mit.edu	37	6	33547130	33547130	+	Intron	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:33547130delA	uc003oes.2	-						BAK1_uc003oet.2_Intron|BAK1_uc010jvb.2_Intron|BAK1_uc003oeu.2_Intron|BAK1_uc011drj.1_Intron	NM_001188	NP_001179	Q16611	BAK_HUMAN	BCL2-antagonist/killer 1						activation of pro-apoptotic gene products|cellular response to mechanical stimulus|cellular response to UV|establishment or maintenance of transmembrane electrochemical gradient|induction of apoptosis by extracellular signals|induction of apoptosis by intracellular signals|regulation of mitochondrial membrane permeability|regulation of mitochondrial membrane potential|regulation of protein heterodimerization activity|regulation of protein homodimerization activity|release of cytochrome c from mitochondria	integral to mitochondrial outer membrane|pore complex	metal ion binding|protein heterodimerization activity			ovary(1)	1						ttcaaaaaacaaaaaaaaaga	0.269													4	2	---	---	---	---	
FKBP5	2289	broad.mit.edu	37	6	35587142	35587142	+	Intron	DEL	A	-	-	rs79773912		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:35587142delA	uc011dte.1	-						FKBP5_uc003okx.2_Intron|FKBP5_uc011dtf.1_Intron|FKBP5_uc003oky.2_Intron|FKBP5_uc003okz.2_Intron	NM_001145776	NP_001139248	Q13451	FKBP5_HUMAN	FK506 binding protein 5 isoform 1						protein folding	cytoplasm|membrane|nucleus	FK506 binding|heat shock protein binding|peptidyl-prolyl cis-trans isomerase activity			ovary(1)	1						GAAAAGTAGCAAAAAAAAAAA	0.294													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	49227456	49227457	+	IGR	INS	-	TCA	TCA	rs151320921	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:49227456_49227457insTCA								None (None upstream) : MUT (171537 downstream)																							CTTCTTCAAGTTCATCAACTTA	0.332													4	2	---	---	---	---	
RHAG	6005	broad.mit.edu	37	6	49589208	49589208	+	Intron	DEL	C	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:49589208delC	uc003ozk.3	-						RHAG_uc010jzl.2_Intron|RHAG_uc010jzm.2_Intron	NM_000324	NP_000315	Q02094	RHAG_HUMAN	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)					aggtgttgatccTTAAGGTGT	0.214													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	52984597	52984598	+	IGR	DEL	TC	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:52984597_52984598delTC								FBXO9 (18929 upstream) : GCM1 (7164 downstream)																							CTTTTGAAGGTCTCTCTCTCTC	0.465													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	54441694	54441694	+	IGR	DEL	T	-	-	rs66780139		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:54441694delT								TINAG (186744 upstream) : FAM83B (269875 downstream)																							tttttttttcttttttttttg	0.000													2	5	---	---	---	---	
PRIM2	5558	broad.mit.edu	37	6	57241000	57241000	+	Intron	DEL	G	-	-	rs111742408		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57241000delG	uc003pdx.2	+						PRIM2_uc003pdw.2_Intron	NM_000947	NP_000938	P49643	PRI2_HUMAN	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)		tgTtagagatgggggtctcac	0.000													3	3	---	---	---	---	
PRIM2	5558	broad.mit.edu	37	6	57397342	57397342	+	Intron	DEL	G	-	-	rs5876596		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57397342delG	uc003pdx.2	+							NM_000947	NP_000938	P49643	PRI2_HUMAN	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)		tggaaaactagttagtaataa	0.000													6	3	---	---	---	---	
PRIM2	5558	broad.mit.edu	37	6	57400857	57400860	+	Intron	DEL	ACAC	-	-	rs67833639		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57400857_57400860delACAC	uc003pdx.2	+							NM_000947	NP_000938	P49643	PRI2_HUMAN	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)		TCTGTCACTTACACACACATGCac	0.206													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	57544979	57544979	+	IGR	DEL	A	-	-	rs112612652		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:57544979delA								PRIM2 (31604 upstream) : GUSBL2 (701180 downstream)																							aactagaaataagtaacagaa	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	58148325	58148325	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:58148325delT								PRIM2 (634950 upstream) : GUSBL2 (97834 downstream)																							TATTGAGCTATTTATTAGTCC	0.483													4	2	---	---	---	---	
DDX43	55510	broad.mit.edu	37	6	74104495	74104496	+	5'UTR	INS	-	G	G	rs141245018	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:74104495_74104496insG	uc003pgw.2	+	1					OOEP_uc003pgv.3_5'UTR|DDX43_uc011dyn.1_RNA	NM_018665	NP_061135	Q9NXZ2	DDX43_HUMAN	DEAD (Asp-Glu-Ala-Asp) box polypeptide 43							intracellular	ATP binding|ATP-dependent RNA helicase activity|RNA binding			ovary(2)|upper_aerodigestive_tract(1)|skin(1)	4						AGAGCGTGGGCGGGGGGGCTAG	0.619											OREG0003901	type=REGULATORY REGION|Gene=DDX43|Dataset=Stanford ENCODE Dataset|EvidenceSubtype=Transient transfection luciferase assay	6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	79325689	79325689	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:79325689delA								None (None upstream) : IRAK1BP1 (251500 downstream)																							GATAAGGAGTAGATGGTTTAG	0.428													4	2	---	---	---	---	
BCKDHB	594	broad.mit.edu	37	6	80876668	80876668	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:80876668delT	uc003pjd.2	+						BCKDHB_uc003pje.2_Intron	NM_000056	NP_000047	P21953	ODBB_HUMAN	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)		ttggtatgccttttttgtcag	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	85070004	85070005	+	IGR	DEL	GA	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:85070004_85070005delGA								KIAA1009 (132669 upstream) : TBX18 (327076 downstream)																							gagtgagagtgagagagagaga	0.134													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	87406615	87406615	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:87406615delT								None (None upstream) : HTR1E (240409 downstream)																							gggagcaaaataatgggaata	0.000													7	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	92356678	92356678	+	Intron	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:92356678delA	uc003pod.2	-											Homo sapiens cDNA clone IMAGE:5284581.																		aattttagccAAAAAAAAAAA	0.045													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	92745973	92745973	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:92745973delA								None (None upstream) : None (None downstream)																							ctataggaggaaaaaagagta	0.139													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	99601712	99601712	+	IGR	DEL	A	-	-	rs113158895		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:99601712delA								FBXL4 (205863 upstream) : C6orf168 (119082 downstream)																							acaggaaaggaaagaggaatt	0.010													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	100180232	100180233	+	IGR	INS	-	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:100180232_100180233insT								PRDM13 (116778 upstream) : MCHR2 (187553 downstream)																							tatttagaaacttttttttttt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	101581999	101581999	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:101581999delA								ASCC3 (252775 upstream) : GRIK2 (264906 downstream)																							ATTTCATTTTAAATCCTACCT	0.269													4	2	---	---	---	---	
GRIK2	2898	broad.mit.edu	37	6	102127624	102127624	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:102127624delT	uc003pqp.3	+						GRIK2_uc003pqn.2_Intron|GRIK2_uc003pqo.3_Intron|GRIK2_uc010kcw.2_Intron	NM_021956	NP_068775	Q13002	GRIK2_HUMAN	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)	attttgtttgtttgtttgttt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	109684599	109684599	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:109684599delT								C6orf182 (199486 upstream) : CD164 (3119 downstream)																							CAAACTTGAAttttttttttt	0.045													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	120949130	120949131	+	IGR	INS	-	A	A	rs150866402	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:120949130_120949131insA								None (None upstream) : C6orf170 (451496 downstream)																							ttcagcagtagaaaaaaagata	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	146832271	146832271	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:146832271delT								GRM1 (73540 upstream) : RAB32 (32557 downstream)																							ttgtgtcctcttttattttgt	0.000													4	2	---	---	---	---	
SASH1	23328	broad.mit.edu	37	6	148841695	148841695	+	Intron	DEL	C	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:148841695delC	uc003qme.1	+						SASH1_uc011eeb.1_Intron	NM_015278	NP_056093	O94885	SASH1_HUMAN	SAM and SH3 domain containing 1								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)		AGGCAGCTTTCACCTTCTCTT	0.512													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	156062164	156062165	+	IGR	INS	-	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:156062164_156062165insT								NOX3 (285127 upstream) : MIR1202 (205766 downstream)																							tccttccttccttccttccttc	0.030													4	2	---	---	---	---	
SNX9	51429	broad.mit.edu	37	6	158305005	158305005	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:158305005delT	uc003qqv.1	+							NM_016224	NP_057308	Q9Y5X1	SNX9_HUMAN	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)		GTTTGAATAATTTTTTTTCAG	0.294													4	2	---	---	---	---	
GTF2H5	404672	broad.mit.edu	37	6	158600759	158600759	+	Intron	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:158600759delA	uc003qrd.2	+							NM_207118	NP_997001	Q6ZYL4	TF2H5_HUMAN	general transcription factor IIH, polypeptide 5						nucleotide-excision repair|regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding				0		Breast(66;0.00519)|Ovarian(120;0.123)|Prostate(117;0.178)		OV - Ovarian serous cystadenocarcinoma(65;5.98e-18)|BRCA - Breast invasive adenocarcinoma(81;2.83e-05)		ttatcagcttaagattttggg	0.000								Direct_reversal_of_damage|NER					4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	6	160319671	160319675	+	IGR	DEL	CCTCC	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr6:160319671_160319675delCCTCC								PNLDC1 (77936 upstream) : MAS1 (8299 downstream)																							tcttcttcctcctccctcttcctcc	0.000													4	3	---	---	---	---	
FAM20C	56975	broad.mit.edu	37	7	212981	212981	+	Intron	DEL	C	-	-	rs36031833		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:212981delC	uc003sip.2	+							NM_020223	NP_064608	Q8IXL6	DMP4_HUMAN	family with sequence similarity 20, member C							extracellular region					0		Ovarian(82;0.0112)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0181)|OV - Ovarian serous cystadenocarcinoma(56;6.57e-17)|Epithelial(4;1.26e-16)|all cancers(6;4.79e-14)		ccgcctccagcccccgtcaag	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	413987	413989	+	IGR	DEL	AAG	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:413987_413989delAAG								FAM20C (113276 upstream) : PDGFA (122910 downstream)																							agaaaaagaaaagaaggaaggag	0.000													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	1686551	1686551	+	IGR	DEL	C	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:1686551delC								TFAMP1 (30224 upstream) : ELFN1 (62247 downstream)																							TGGCCCCTCTCCTTTGGTGCT	0.363													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	8986385	8986386	+	IGR	INS	-	C	C	rs141964588	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:8986385_8986386insC								NXPH1 (193793 upstream) : PER4 (687514 downstream)																							TTTcctttctaccctgctctat	0.168													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	13258537	13258537	+	IGR	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:13258537delG								ARL4A (527981 upstream) : ETV1 (672321 downstream)																							tttaaagcctggaattattcc	0.119													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	15965141	15965141	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:15965141delA								MEOX2 (238833 upstream) : ISPD (162011 downstream)																							gaggggagggaaaatgggaag	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	19254305	19254306	+	IGR	INS	-	GATC	GATC	rs141720106	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:19254305_19254306insGATC								FERD3L (69261 upstream) : TWISTNB (480779 downstream)																							GGATCTACGGGGAtctatctgt	0.213													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	19871607	19871608	+	IGR	DEL	AC	-	-	rs113792314		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:19871607_19871608delAC								TMEM196 (58391 upstream) : MACC1 (302680 downstream)																							AAacacacagacacacacacac	0.193													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	26157908	26157909	+	IGR	INS	-	TTGT	TTGT	rs143871478	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:26157908_26157909insTTGT								MIR148A (168302 upstream) : NFE2L3 (33938 downstream)																							tgttgttgttgttgagacaggt	0.074													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	27478078	27478078	+	IGR	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:27478078delG								EVX1 (191886 upstream) : HIBADH (86985 downstream)																							tcaccatgttggccaggctgg	0.005													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	28941725	28941728	+	IGR	DEL	ATTA	-	-	rs145078769		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:28941725_28941728delATTA								CREB5 (76216 upstream) : TRIL (51248 downstream)																							ataatttgttattaattaataggc	0.078													4	2	---	---	---	---	
AMPH	273	broad.mit.edu	37	7	38565046	38565047	+	Intron	DEL	GT	-	-	rs146505083		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:38565046_38565047delGT	uc003tgu.2	-						AMPH_uc003tgv.2_Intron	NM_001635	NP_001626	P49418	AMPH_HUMAN	amphiphysin isoform 1						endocytosis|synaptic transmission	actin cytoskeleton|cell junction|synaptic vesicle membrane				ovary(3)|liver(1)|skin(1)	5						tcatttgtgcgtgtgtgtgtgt	0.000													4	2	---	---	---	---	
VPS41	27072	broad.mit.edu	37	7	38888449	38888450	+	Intron	DEL	GC	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:38888449_38888450delGC	uc003tgy.2	-						VPS41_uc003tgz.2_Intron|VPS41_uc010kxn.2_Intron	NM_014396	NP_055211	P49754	VPS41_HUMAN	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						TATCACCACTGCTCTTTCTACA	0.490													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	41648217	41648218	+	IGR	INS	-	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:41648217_41648218insT								C7orf10 (747860 upstream) : INHBA (80385 downstream)																							atagctttggcttttttttgtt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	47046891	47046891	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:47046891delA								None (None upstream) : TNS3 (267862 downstream)																							ggagttcactaaaattacaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	53985735	53985735	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:53985735delT								POM121L12 (881118 upstream) : HPVC1 (283182 downstream)																							ctttgcttccttggtactaca	0.035													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	57619681	57619681	+	IGR	DEL	T	-	-	rs113627709		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:57619681delT								ZNF716 (86416 upstream) : None (None downstream)																							GAAGGGTTAATTTACAAGTGG	0.408													4	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	57662771	57662772	+	IGR	INS	-	TTTCT	TTTCT	rs151070132		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:57662771_57662772insTTTCT								ZNF716 (129506 upstream) : None (None downstream)																							tcttgtctttctttttttcttt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	57972862	57972863	+	IGR	INS	-	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:57972862_57972863insA								ZNF716 (439597 upstream) : None (None downstream)																							gcagatcctacaaaaagagtgt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	57980690	57980690	+	IGR	DEL	T	-	-	rs35213191		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:57980690delT								ZNF716 (447425 upstream) : None (None downstream)																							agttactttgtgatgtgtgca	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	61866881	61866882	+	IGR	INS	-	T	T	rs149926706	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:61866881_61866882insT								None (None upstream) : LOC643955 (884790 downstream)																							ctgggatattatttttttgcca	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	62070336	62070337	+	IGR	INS	-	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:62070336_62070337insC								None (None upstream) : LOC643955 (681335 downstream)																							tatttccttttcaccataggcc	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	64755499	64755499	+	IGR	DEL	C	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:64755499delC								INTS4L1 (60900 upstream) : ZNF92 (83269 downstream)																							ttctttctttctctttctttc	0.025													4	2	---	---	---	---	
WBSCR17	64409	broad.mit.edu	37	7	70804676	70804676	+	Intron	DEL	A	-	-	rs34875384		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:70804676delA	uc003tvy.2	+						WBSCR17_uc003tvz.2_Intron	NM_022479	NP_071924	Q6IS24	GLTL3_HUMAN	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)				actctgtctcaaaaaaaaaaa	0.000													4	2	---	---	---	---	
GTF2IRD1	9569	broad.mit.edu	37	7	73891693	73891694	+	Intron	INS	-	A	A	rs150000139	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:73891693_73891694insA	uc003uaq.2	+						GTF2IRD1_uc010lbq.2_Intron|GTF2IRD1_uc003uap.2_Intron	NM_016328	NP_057412	Q9UHL9	GT2D1_HUMAN	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						TTTTTGTGTCCAAAAAAAAAAG	0.302													2	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	76077249	76077249	+	IGR	DEL	C	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:76077249delC								ZP3 (5862 upstream) : DTX2 (13723 downstream)																							ttcaaaagtactttaccaaat	0.010													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	85884965	85884966	+	IGR	DEL	AT	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:85884965_85884966delAT								None (None upstream) : GRM3 (388264 downstream)																							aaagacttacatgttagaccta	0.000													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	86016829	86016830	+	IGR	DEL	CC	-	-	rs66491588		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:86016829_86016830delCC								None (None upstream) : GRM3 (256400 downstream)																							TACATACTTTCCCCTTCCTTTG	0.337													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	98082669	98082670	+	IGR	INS	-	TG	TG	rs146928223	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:98082669_98082670insTG								BAIAP2L1 (52242 upstream) : NPTX2 (163927 downstream)																							GGTGAGTTTGCTGGGGGAAATG	0.505													4	3	---	---	---	---	
LHFPL3	375612	broad.mit.edu	37	7	104149715	104149715	+	Intron	DEL	A	-	-	rs35754466		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:104149715delA	uc003vce.2	+						LHFPL3_uc003vcf.2_Intron	NM_199000	NP_945351	Q86UP9	LHPL3_HUMAN	lipoma HMGIC fusion partner-like 3							integral to membrane					0						ggaagaaaggaaaaaaaaaaa	0.000													4	3	---	---	---	---	
LAMB1	3912	broad.mit.edu	37	7	107600635	107600635	+	Intron	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:107600635delG	uc003vew.2	-						LAMB1_uc003vev.2_Intron|LAMB1_uc003vex.2_Intron	NM_002291	NP_002282	P07942	LAMB1_HUMAN	laminin, beta 1 precursor						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)	CCCTGCTTATGGAAATGCTTT	0.403													4	2	---	---	---	---	
DOCK4	9732	broad.mit.edu	37	7	111591703	111591703	+	Intron	DEL	A	-	-	rs35968911		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:111591703delA	uc003vfx.2	-						DOCK4_uc003vfy.2_Intron|DOCK4_uc003vga.1_Intron|DOCK4_uc010ljt.1_Intron	NM_014705	NP_055520	Q8N1I0	DOCK4_HUMAN	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)				catcgctaccaaaaaaaaaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	127744847	127744848	+	IGR	INS	-	C	C	rs138512121	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:127744847_127744848insC								SND1 (12189 upstream) : MIR129-1 (103077 downstream)																							TCCGCTCCCTTCATCCGGGTGA	0.332													2	4	---	---	---	---	
UBN2	254048	broad.mit.edu	37	7	138936950	138936950	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:138936950delT	uc011kqr.1	+							NM_173569	NP_775840	Q6ZU65	UBN2_HUMAN	ubinuclein 2											ovary(1)|skin(1)	2						TTCTTTACCCTTTTTTTTTTT	0.284													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	142223659	142223659	+	Intron	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:142223659delA	uc011krp.1	+						uc011krr.1_Intron|uc011krx.1_Intron|uc011ksa.1_Intron					Homo sapiens mRNA for T cell receptor beta variable 3, partial cds, clone: un 191.																		ATGTTTTAAGAAAATAGTTCA	0.388													8	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	149344024	149344024	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:149344024delA								ZNF767 (22143 upstream) : KRBA1 (68078 downstream)																							tctcaaaaagaaaaaaaaaaa	0.040													3	3	---	---	---	---	
MLL3	58508	broad.mit.edu	37	7	152101632	152101633	+	Intron	INS	-	CTC	CTC	rs147073720		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:152101632_152101633insCTC	uc003wla.2	-							NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	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)		ggcaggaaaatctgaatccggg	0.005			N		medulloblastoma								4	6	---	---	---	---	
MLL3	58508	broad.mit.edu	37	7	152105489	152105490	+	Intron	INS	-	A	A	rs145707820		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:152105489_152105490insA	uc003wla.2	-							NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	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)		TTCAATATATTAAAAAAATTAT	0.178			N		medulloblastoma								6	9	---	---	---	---	
MLL3	58508	broad.mit.edu	37	7	152106492	152106495	+	Intron	DEL	AAGA	-	-	rs76883025		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:152106492_152106495delAAGA	uc003wla.2	-							NM_170606	NP_733751	Q8NEZ4	MLL3_HUMAN	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)		AGATTTTCAGAAGAAATATGTTAA	0.152			N		medulloblastoma								6	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	153505271	153505272	+	IGR	DEL	TG	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:153505271_153505272delTG								ACTR3B (952808 upstream) : DPP6 (79147 downstream)																							ttgttgccactgtgtgtgtgtg	0.015													5	3	---	---	---	---	
DPP6	1804	broad.mit.edu	37	7	153962159	153962164	+	Intron	DEL	TGATGA	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:153962159_153962164delTGATGA	uc003wlk.2	+						DPP6_uc003wli.2_Intron|DPP6_uc003wlj.2_Intron	NM_130797	NP_570629	P42658	DPP6_HUMAN	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)			gtgttaatggtgatgatgatggtgat	0.000													5	3	---	---	---	---	
RBM33	155435	broad.mit.edu	37	7	155573472	155573473	+	3'UTR	INS	-	ACCACTCCATC	ACCACTCCATC	rs72367154		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:155573472_155573473insACCACTCCATC	uc010lqk.1	+	18					RBM33_uc003wmg.2_3'UTR	NM_053043	NP_444271	Q96EV2	RBM33_HUMAN	RNA binding motif protein 33								nucleotide binding|RNA binding			ovary(1)	1	all_neural(206;0.101)	all_hematologic(28;0.0592)	OV - Ovarian serous cystadenocarcinoma(82;0.011)	UCEC - Uterine corpus endometrioid carcinoma (81;0.2)		ACACTGTGTTTACCACTCCATC	0.495													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	7	155907140	155907140	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:155907140delA								SHH (302173 upstream) : C7orf4 (426045 downstream)																							gaggaagattaaaaaaaaaaa	0.005													4	2	---	---	---	---	
PTPRN2	5799	broad.mit.edu	37	7	158037344	158037345	+	Intron	DEL	TG	-	-	rs10580740		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr7:158037344_158037345delTG	uc003wno.2	-						PTPRN2_uc003wnp.2_Intron|PTPRN2_uc003wnq.2_Intron|PTPRN2_uc003wnr.2_Intron|PTPRN2_uc011kwa.1_Intron	NM_002847	NP_002838	Q92932	PTPR2_HUMAN	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)		GTGATTGTTTTGTGTGTCAGTT	0.238													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	1269276	1269277	+	IGR	DEL	TG	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:1269276_1269277delTG								ERICH1 (588050 upstream) : DLGAP2 (180292 downstream)																							catgtgcctctgtgtgtgtgtg	0.015													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	1285596	1285598	+	IGR	DEL	TGG	-	-	rs62486251		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:1285596_1285598delTGG								ERICH1 (604370 upstream) : DLGAP2 (163971 downstream)																							atgatggtgatggtgatgatgat	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	2093429	2093430	+	IGR	INS	-	C	C	rs148097394	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:2093429_2093430insC								MYOM2 (50 upstream) : CSMD1 (699446 downstream)																							GCCCCTGCTCACCCCCTGGCTT	0.470													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	2296380	2296381	+	IGR	INS	-	AT	AT	rs145164499	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:2296380_2296381insAT								MYOM2 (203001 upstream) : CSMD1 (496495 downstream)																							tgtgtgagagcgtgtgtgtgag	0.104													3	3	---	---	---	---	
CSMD1	64478	broad.mit.edu	37	8	4482563	4482563	+	Intron	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:4482563delG	uc011kwk.1	-							NM_033225	NP_150094	Q96PZ7	CSMD1_HUMAN	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)		ATGAGAAACCGGGAAGAATGA	0.388													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	9769283	9769283	+	IGR	DEL	A	-	-	rs36003766		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:9769283delA								MIR124-1 (8301 upstream) : MSRA (142547 downstream)																							ATTGTAACAGAAAAAAAAAAG	0.353													4	2	---	---	---	---	
FAM66D	100132923	broad.mit.edu	37	8	12411528	12411529	+	Intron	INS	-	A	A	rs140401581		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:12411528_12411529insA	uc011kxp.1	+						uc003wvm.1_Intron|uc003wvw.1_Intron|uc003wvx.1_Intron|uc003wvy.3_Intron					Homo sapiens cDNA FLJ37098 fis, clone BRACE2019004.												0						actccattgctaaaaaaaaaaa	0.000													8	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	18156573	18156573	+	IGR	DEL	T	-	-	rs149428907		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:18156573delT								NAT1 (75376 upstream) : NAT2 (92182 downstream)																							TCTAATACCCTTTATACAGTA	0.323													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	24799432	24799432	+	IGR	DEL	A	-	-	rs67631239		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:24799432delA								NEFM (22827 upstream) : NEFL (9039 downstream)																							gagggggtccaaaactgcatt	0.194													2	4	---	---	---	---	
PPP2R2A	5520	broad.mit.edu	37	8	25531920	25531921	+	Intron	INS	-	G	G	rs140059341	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:25531920_25531921insG	uc003xek.2	+							NM_002717	NP_002708	P63151	2ABA_HUMAN	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)		TTTGTTTGTTTTTTGTTTTTCC	0.173													3	4	---	---	---	---	
SCARA3	51435	broad.mit.edu	37	8	27495832	27495833	+	Intron	DEL	TG	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:27495832_27495833delTG	uc003xga.1	+						SCARA3_uc003xgb.1_Intron	NM_016240	NP_057324	Q6AZY7	SCAR3_HUMAN	scavenger receptor class A, member 3 isoform 1						response to oxidative stress|UV protection	collagen|endoplasmic reticulum membrane|Golgi membrane|integral to membrane	scavenger receptor activity			skin(2)|ovary(1)|breast(1)	4		Ovarian(32;2.61e-05)		UCEC - Uterine corpus endometrioid carcinoma (27;0.0219)|Colorectal(74;0.148)		ATTTAGTGATtgtgtgtgtgtg	0.416													4	2	---	---	---	---	
RBPMS	11030	broad.mit.edu	37	8	30287735	30287736	+	Intron	INS	-	ATGG	ATGG	rs147429445	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:30287735_30287736insATGG	uc003xic.1	+						RBPMS_uc003xid.1_Intron|RBPMS_uc003xie.1_Intron|RBPMS_uc011lba.1_Intron|RBPMS_uc003xib.2_Intron	NM_006867	NP_006858	Q93062	RBPMS_HUMAN	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)		ccctgtcttaaatggatggatg	0.099													5	3	---	---	---	---	
RBPMS	11030	broad.mit.edu	37	8	30331610	30331611	+	Intron	INS	-	AAC	AAC	rs140129097	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:30331610_30331611insAAC	uc003xic.1	+						RBPMS_uc003xid.1_Intron|RBPMS_uc003xie.1_Intron|RBPMS_uc011lba.1_Intron|RBPMS_uc003xib.2_Intron|RBPMS_uc010lvh.1_Intron	NM_006867	NP_006858	Q93062	RBPMS_HUMAN	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)		aaaatttaaaaaaCAACAACAA	0.198													4	3	---	---	---	---	
GTF2E2	2961	broad.mit.edu	37	8	30454210	30454210	+	Intron	DEL	A	-	-	rs77668933		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:30454210delA	uc003xig.2	-							NM_002095	NP_002086	P29084	T2EB_HUMAN	general transcription factor IIE, polypeptide 2,						regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	transcription factor TFIIE complex	DNA binding|protein binding				0				KIRC - Kidney renal clear cell carcinoma(542;0.113)|Kidney(114;0.135)		tttatgcctcaaaaacttttt	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	39924876	39924886	+	IGR	DEL	TTCCCCTTCCC	-	-	rs146250482		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:39924876_39924886delTTCCCCTTCCC								IDO2 (50966 upstream) : C8orf4 (86103 downstream)																							CTTCAGGtctttccccttcccttccccatcc	0.033													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	50170033	50170033	+	IGR	DEL	A	-	-	rs35041014		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:50170033delA								C8orf22 (181392 upstream) : SNTG1 (652316 downstream)																							ATTATTAATCAATATTTCCTG	0.249													2	4	---	---	---	---	
ST18	9705	broad.mit.edu	37	8	53297346	53297347	+	Intron	INS	-	GT	GT	rs147007096	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:53297346_53297347insGT	uc003xra.2	-						ST18_uc003xrb.2_Intron|ST18_uc010lyb.2_Intron	NM_014682	NP_055497	O60284	ST18_HUMAN	suppression of tumorigenicity 18							nucleus	DNA binding|sequence-specific DNA binding transcription factor activity|zinc ion binding			ovary(4)|skin(1)	5		Lung NSC(129;0.131)|all_epithelial(80;0.217)|all_lung(136;0.229)				TGTGTACACAGgtgtgtgtgtg	0.366													6	3	---	---	---	---	
ATP6V1H	51606	broad.mit.edu	37	8	54645219	54645220	+	Intron	DEL	AA	-	-	rs78393368		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:54645219_54645220delAA	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	Q9UI12	VATH_HUMAN	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)			agcttattgcaaaaaaaaaaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	55044048	55044048	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:55044048delT								LYPLA1 (29471 upstream) : MRPL15 (3733 downstream)																							TCTGCTCAACttttttttttt	0.209													4	2	---	---	---	---	
TOX	9760	broad.mit.edu	37	8	59857260	59857260	+	Intron	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:59857260delA	uc003xtw.1	-							NM_014729	NP_055544	O94900	TOX_HUMAN	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)				aaagcctaataatatgtgttt	0.199													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	66801827	66801828	+	IGR	DEL	TG	-	-	rs34538454		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:66801827_66801828delTG								PDE7A (48072 upstream) : DNAJC5B (131963 downstream)																							tgtatgtgcatgtgtgtgtgtg	0.228													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	67332813	67332813	+	IGR	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:67332813delG								CRH (242115 upstream) : RRS1 (8450 downstream)																							ACAAAAGTACGGACAGCTAAC	0.174													2	8	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	68272946	68272947	+	IGR	DEL	TG	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:68272946_68272947delTG								ARFGEF1 (17034 upstream) : CPA6 (61459 downstream)																							tgtgtgtgtctgtgtgtgtgtg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	70156468	70156468	+	IGR	DEL	A	-	-	rs111267016		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:70156468delA								C8orf34 (425212 upstream) : SULF1 (222391 downstream)																							ttaacatgctaaaaaaaaaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	70990047	70990048	+	IGR	INS	-	TTTC	TTTC	rs141325911	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:70990047_70990048insTTTC								PRDM14 (6485 upstream) : NCOA2 (34219 downstream)																							tctcttttctttttctttcttt	0.030													4	2	---	---	---	---	
TCEB1	6921	broad.mit.edu	37	8	74865896	74865896	+	Intron	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:74865896delA	uc003xzx.1	-						TCEB1_uc003xzy.1_Intron|TCEB1_uc003xzz.1_Intron|TCEB1_uc003yaa.1_Intron	NM_005648	NP_005639	Q15369	ELOC_HUMAN	elongin C						interspecies interaction between organisms|positive regulation of viral transcription|regulation of transcription from RNA polymerase II promoter|transcription elongation from RNA polymerase II promoter|ubiquitin-dependent protein catabolic process|viral reproduction	cytosol|nucleoplasm	protein binding				0	Breast(64;0.0311)		Epithelial(68;0.0136)|all cancers(69;0.0431)|BRCA - Breast invasive adenocarcinoma(89;0.0499)			actctgtctcaaaaaaaaaaa	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	75962916	75962916	+	IGR	DEL	C	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:75962916delC								CRISPLD1 (16125 upstream) : HNF4G (357267 downstream)																							gctagtcttgccacttccaaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	79110637	79110637	+	IGR	DEL	A	-	-	rs5892645		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:79110637delA								None (None upstream) : PKIA (317699 downstream)																							ATGGCAACATAAAAAAAAAAA	0.333													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	79906147	79906148	+	IGR	INS	-	T	T	rs146042321	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:79906147_79906148insT								IL7 (188389 upstream) : STMN2 (617232 downstream)																							caaagactatagattctactta	0.000													1	5	---	---	---	---	
ZBTB10	65986	broad.mit.edu	37	8	81403444	81403444	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:81403444delT	uc003ybx.3	+						ZBTB10_uc003ybv.3_Intron|ZBTB10_uc003ybw.3_Intron|ZBTB10_uc010lzt.2_Intron	NM_001105539	NP_001099009	Q96DT7	ZBT10_HUMAN	zinc finger and BTB domain containing 10 isoform						transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			lung(1)	1	all_cancers(3;1.68e-09)|all_epithelial(4;5.13e-11)|Lung NSC(7;1.75e-07)|all_lung(9;7.38e-07)|Breast(3;2.96e-06)		BRCA - Breast invasive adenocarcinoma(6;0.000434)|Epithelial(68;0.00486)|all cancers(69;0.0296)			ttactgtacctttttcatgtt	0.000													4	2	---	---	---	---	
ZNF704	619279	broad.mit.edu	37	8	81612064	81612074	+	Intron	DEL	CTCCCCACCCA	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:81612064_81612074delCTCCCCACCCA	uc003yby.1	-							NM_001033723	NP_001028895	Q6ZNC4	ZN704_HUMAN	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)			TACAACTTCTCTCCCCACCCACTCTGCCCAC	0.502													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	85082458	85082468	+	IGR	DEL	TTTTTTTTTTT	-	-	rs142364754		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:85082458_85082468delTTTTTTTTTTT								None (None upstream) : RALYL (12985 downstream)																							gcacccgttcttttttttttttttttttttt	0.000													4	2	---	---	---	---	
RALYL	138046	broad.mit.edu	37	8	85226269	85226269	+	Intron	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:85226269delG	uc003ycq.3	+						RALYL_uc003ycr.3_Intron|RALYL_uc003ycs.3_Intron|RALYL_uc010lzy.2_Intron|RALYL_uc003yct.3_Intron	NM_001100392	NP_001093862	Q86SE5	RALYL_HUMAN	RALY RNA binding protein-like isoform 2								identical protein binding|nucleotide binding|RNA binding			ovary(1)	1						ctgcatggctgggggagggct	0.010													4	2	---	---	---	---	
VPS13B	157680	broad.mit.edu	37	8	100311814	100311814	+	Intron	DEL	T	-	-	rs76935675		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:100311814delT	uc003yiv.2	+						VPS13B_uc003yiw.2_Intron|VPS13B_uc003yiu.1_Intron|VPS13B_uc003yix.1_Intron	NM_017890	NP_060360	Q7Z7G8	VP13B_HUMAN	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)			AACTTACAGATTTTTTTTTTT	0.184													3	3	---	---	---	---	
CTHRC1	115908	broad.mit.edu	37	8	104385069	104385070	+	Intron	INS	-	T	T	rs146221155	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:104385069_104385070insT	uc003ylk.2	+						CTHRC1_uc011lhq.1_Intron	NM_138455	NP_612464	Q96CG8	CTHR1_HUMAN	collagen triple helix repeat containing 1							collagen				ovary(1)	1			OV - Ovarian serous cystadenocarcinoma(57;2.79e-06)|STAD - Stomach adenocarcinoma(118;0.197)			AAGTTGGGGCATTTTTTTTTAA	0.366													4	2	---	---	---	---	
RIMS2	9699	broad.mit.edu	37	8	104980647	104980647	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:104980647delT	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	Q9UQ26	RIMS2_HUMAN	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)			tttttcagtgtttttttttta	0.000										HNSCC(12;0.0054)			4	2	---	---	---	---	
ZFPM2	23414	broad.mit.edu	37	8	106474704	106474705	+	Intron	DEL	TA	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:106474704_106474705delTA	uc003ymd.2	+							NM_012082	NP_036214	Q8WW38	FOG2_HUMAN	zinc finger protein, multitype 2						blood coagulation|negative regulation of fat cell differentiation|outflow tract septum morphogenesis|right ventricular cardiac muscle tissue morphogenesis|ventricular septum morphogenesis	nucleoplasm	DNA binding|RNA polymerase II transcription coactivator activity|transcription corepressor activity|transcription factor binding|zinc ion binding			ovary(4)|large_intestine(1)	5			OV - Ovarian serous cystadenocarcinoma(57;8.28e-08)			GGAAGGAAGGTAAAGGTAATGG	0.163													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	107254476	107254476	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:107254476delA								ZFPM2 (437711 upstream) : OXR1 (27997 downstream)																							ACAAGAACACAAAAAAAAAAA	0.308													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	116005587	116005588	+	IGR	INS	-	T	T	rs71925316		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:116005587_116005588insT								None (None upstream) : TRPS1 (415137 downstream)																							TGGCATGTTTGGGGCATATGTG	0.396													4	2	---	---	---	---	
SAMD12	401474	broad.mit.edu	37	8	119634026	119634026	+	Intron	DEL	C	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:119634026delC	uc003yom.2	-						SAMD12_uc010mda.1_Intron|SAMD12_uc010mdb.1_Intron	NM_207506	NP_997389	Q8N8I0	SAM12_HUMAN	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)			CTTAAAAATGCCCCAAGCGTC	0.607													30	17	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	123755746	123755747	+	IGR	INS	-	A	A	rs34442893		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:123755746_123755747insA								None (None upstream) : ZHX2 (38154 downstream)																							acagtatgtgcaaaAAAAAAAA	0.203													4	2	---	---	---	---	
NSMCE2	286053	broad.mit.edu	37	8	126317126	126317126	+	Intron	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:126317126delA	uc003yrw.2	+							NM_173685	NP_775956	Q96MF7	NSE2_HUMAN	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)			ccagactctgaaaaaaaaaaa	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	128209836	128209836	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:128209836delA								FAM84B (639370 upstream) : LOC727677 (92226 downstream)																							gcacataaggaaataatttca	0.144													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	138420166	138420177	+	IGR	DEL	TGTTCCTCTCCC	-	-	rs150315671		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:138420166_138420177delTGTTCCTCTCCC								None (None upstream) : FAM135B (722091 downstream)																							cagtgtgtgatgttcctctccctgtgtctaca	0.000													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	142565299	142565300	+	IGR	INS	-	C	C	rs141772575		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:142565299_142565300insC								FLJ43860 (47969 upstream) : MIR1302-7 (302303 downstream)																							tggaggtgtgtcatggtgttgg	0.119													6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	143513812	143513814	+	IGR	DEL	CAC	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:143513812_143513814delCAC								TSNARE1 (29269 upstream) : BAI1 (31563 downstream)																							atatcaccatcaccaccaccatc	0.103													5	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	8	144751786	144751787	+	IGR	INS	-	TT	TT	rs66509775		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr8:144751786_144751787insTT								ZNF623 (15886 upstream) : ZNF707 (14835 downstream)																							acagatgtgggttacagattgg	0.015													8	9	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	35913763	35913764	+	IGR	DEL	GT	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:35913763_35913764delGT								LOC158376 (2146 upstream) : OR2S2 (43342 downstream)																							tatgtgtgtagtgtgtgtgttt	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	38643837	38643838	+	IGR	INS	-	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:38643837_38643838insA								C9orf122 (20562 upstream) : CNTNAP3 (428928 downstream)																							TTTGTGTGATTAAAAAAAAAAA	0.441													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	66473147	66473148	+	IGR	INS	-	A	A	rs75438927	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:66473147_66473148insA								FAM74A4 (978761 upstream) : LOC442421 (23322 downstream)																							tatagaattttaaaaatagcct	0.000													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	66486264	66486265	+	IGR	DEL	GA	-	-	rs60599667		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:66486264_66486265delGA								FAM74A4 (991878 upstream) : LOC442421 (10205 downstream)																							GCGGGGCTCTGAGGGGCACGAG	0.658													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	66826477	66826477	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:66826477delA								LOC442421 (323450 upstream) : AQP7P1 (427790 downstream)																							agagttgaacattccttttca	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	66990579	66990579	+	IGR	DEL	T	-	-	rs140894478	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:66990579delT								LOC442421 (487552 upstream) : AQP7P1 (263688 downstream)																							tgctcaatcataagaaatttt	0.000													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	68406963	68406964	+	IGR	INS	-	CT	CT	rs150304681	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:68406963_68406964insCT								FAM27B (612774 upstream) : MIR1299 (595275 downstream)																							agagagaaagactgtatctttg	0.000													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	68413196	68413197	+	RNA	INS	-	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:68413196_68413197insC	uc004aew.1	+	2		c.1358_1359insC			uc004aex.2_5'Flank					Homo sapiens cDNA, FLJ98602.																		tagttagaagactaggctgctg	0.069													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	68426704	68426705	+	IGR	INS	-	C	C	rs75060713		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:68426704_68426705insC								FAM27B (632515 upstream) : MIR1299 (575534 downstream)																							agttgtgaaaacaaaaatgtcc	0.252													8	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	68479214	68479214	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:68479214delA								FAM27B (685025 upstream) : MIR1299 (523025 downstream)																							aggagggaataaaaaaagagg	0.000													6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	9	76150658	76150658	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:76150658delT								ANXA1 (365351 upstream) : RORB (961594 downstream)																							aacttaagtgttttttttttt	0.000													4	2	---	---	---	---	
NTRK2	4915	broad.mit.edu	37	9	87494052	87494055	+	Intron	DEL	AGAG	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:87494052_87494055delAGAG	uc004aoa.1	+						NTRK2_uc004any.1_Intron|NTRK2_uc004anz.1_Intron	NM_001018064	NP_001018074	Q16620	NTRK2_HUMAN	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						AGGCTGCCAAagagagagagagag	0.230										TSP Lung(25;0.17)			4	2	---	---	---	---	
COL5A1	1289	broad.mit.edu	37	9	137618893	137618896	+	Intron	DEL	GGAT	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr9:137618893_137618896delGGAT	uc004cfe.2	+							NM_000093	NP_000084	P20908	CO5A1_HUMAN	alpha 1 type V collagen preproprotein						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)		atgagtgaacggatggatggatgg	0.176													5	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	3830863	3830864	+	IGR	INS	-	TTT	TTT	rs139180907	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:3830863_3830864insTTT								KLF6 (3390 upstream) : LOC100216001 (790580 downstream)																							TAAAATGTTCCtttttttttga	0.139													3	3	---	---	---	---	
FBXO18	84893	broad.mit.edu	37	10	5945295	5945295	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:5945295delT	uc001iis.2	+						FBXO18_uc001iir.2_Intron|FBXO18_uc009xig.2_Intron|FBXO18_uc001iit.2_Intron	NM_178150	NP_835363	Q8NFZ0	FBX18_HUMAN	F-box only protein, helicase, 18 isoform 2						DNA repair	nucleus	ATP binding|ATP-dependent DNA helicase activity|DNA binding			ovary(2)|skin(1)	3						TTCCATGAAGttttttttttt	0.164													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	11940347	11940347	+	IGR	DEL	C	-	-	rs139729400		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:11940347delC								C10orf47 (26073 upstream) : UPF2 (21675 downstream)																							TCAGCCTTCACCTCTGTGCGT	0.527													4	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	12330432	12330432	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:12330432delA								CDC123 (37845 upstream) : CAMK1D (61151 downstream)																							ctctgtctacaaaaaaaaaag	0.244													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	17672820	17672821	+	IGR	INS	-	G	G	rs71393027		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:17672820_17672821insG								PTPLA (13447 upstream) : STAM (13303 downstream)																							tgtgggatgaaggggggggagg	0.000													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	22543609	22543610	+	IGR	INS	-	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:22543609_22543610insA								DNAJC1 (250959 upstream) : COMMD3 (61689 downstream)																							AAGGCCTACTTAAAAAAAAAAA	0.342													4	2	---	---	---	---	
ANKRD30A	91074	broad.mit.edu	37	10	37454269	37454269	+	Intron	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:37454269delG	uc001iza.1	+							NM_052997	NP_443723	Q9BXX3	AN30A_HUMAN	ankyrin repeat domain 30A							nucleus	DNA binding|sequence-specific DNA binding transcription factor activity			ovary(7)|breast(1)|skin(1)	9						GTGAAATTCTGGGAATTTGTA	0.353													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	39101085	39101086	+	IGR	INS	-	AACTG	AACTG	rs75378691		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:39101085_39101086insAACTG								LOC399744 (360005 upstream) : None (None downstream)																							cattccattccattccattcca	0.000													5	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	42357894	42357898	+	IGR	DEL	TGACT	-	-	rs76984107		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:42357894_42357898delTGACT								None (None upstream) : LOC441666 (469417 downstream)																							ttccattccatgactttccattcct	0.000													9	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	46984928	46984929	+	IGR	INS	-	A	A	rs147764650		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:46984928_46984929insA								SYT15 (14327 upstream) : GPRIN2 (8617 downstream)																							TATCTCCAGATAAAAAACAAGA	0.416													4	2	---	---	---	---	
PPYR1	5540	broad.mit.edu	37	10	47084717	47084718	+	Intron	DEL	GT	-	-	rs75109131		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:47084717_47084718delGT	uc001jee.2	+						ANXA8_uc001jed.3_Intron|PPYR1_uc009xna.2_Intron	NM_005972	NP_005963	P50391	NPY4R_HUMAN	pancreatic polypeptide receptor 1						blood circulation|digestion|feeding behavior	integral to plasma membrane				ovary(1)|skin(1)	2						GGGATGAATGGTGTTTCTCCAC	0.505													8	4	---	---	---	---	
PPYR1	5540	broad.mit.edu	37	10	47085033	47085033	+	Intron	DEL	T	-	-	rs67307352		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:47085033delT	uc001jee.2	+						ANXA8_uc001jed.3_Intron|PPYR1_uc009xna.2_Intron	NM_005972	NP_005963	P50391	NPY4R_HUMAN	pancreatic polypeptide receptor 1						blood circulation|digestion|feeding behavior	integral to plasma membrane				ovary(1)|skin(1)	2						AATGAGACTCttttttttttt	0.194													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	48600861	48600861	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:48600861delT								GDF10 (161695 upstream) : FRMPD2L1 (243182 downstream)																							AAGTAAAACATTTTTTTTCTG	0.493													4	2	---	---	---	---	
C10orf128	170371	broad.mit.edu	37	10	50366348	50366349	+	Intron	INS	-	T	T	rs112698847		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:50366348_50366349insT	uc001jhn.3	-						C10orf128_uc001jhl.3_Intron|C10orf128_uc001jhm.3_Intron|C10orf128_uc010qgo.1_Intron	NM_001010863	NP_001010863	Q5T292	CJ128_HUMAN	hypothetical protein LOC170371 precursor							integral to membrane				lung(1)	1						atgttTGCTTCTTTTTTTTTTT	0.163													4	2	---	---	---	---	
CTNNA3	29119	broad.mit.edu	37	10	68112643	68112643	+	Intron	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:68112643delG	uc009xpn.1	-						CTNNA3_uc001jmw.2_Intron	NM_001127384	NP_001120856	Q9UI47	CTNA3_HUMAN	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						tggttatcttggggaggcaga	0.000													4	2	---	---	---	---	
CDH23	64072	broad.mit.edu	37	10	73416672	73416672	+	Intron	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:73416672delG	uc001jrx.3	+						CDH23_uc001jry.2_Intron|CDH23_uc001jrz.2_Intron	NM_022124	NP_071407	Q9H251	CAD23_HUMAN	cadherin-like 23 isoform 1 precursor						calcium ion transport|calcium-dependent cell-cell adhesion|cytosolic calcium ion homeostasis|equilibrioception|homophilic cell adhesion|photoreceptor cell maintenance|response to stimulus|sensory perception of sound	cytosol|integral to membrane|plasma membrane|stereocilium	calcium ion binding|protein binding			central_nervous_system(5)|large_intestine(4)|ovary(2)	11						GAGAATAGGCGGGGGGTAGGG	0.299													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	85642400	85642401	+	IGR	DEL	AC	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:85642400_85642401delAC								NRG3 (895465 upstream) : GHITM (256784 downstream)																							TTTCCACAGAacacacacacac	0.198													4	3	---	---	---	---	
GRID1	2894	broad.mit.edu	37	10	88122380	88122380	+	Intron	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:88122380delA	uc001kdl.1	-						GRID1_uc009xsu.1_Intron	NM_017551	NP_060021	Q9ULK0	GRID1_HUMAN	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)	CTGCCCCCAGAGCTGGCCCCT	0.562										Multiple Myeloma(13;0.14)			4	2	---	---	---	---	
IDE	3416	broad.mit.edu	37	10	94269679	94269679	+	Intron	DEL	A	-	-	rs71925883		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:94269679delA	uc001kia.2	-							NM_004969	NP_004960	P14735	IDE_HUMAN	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)	ctctgtttccaaaaaaaaaaa	0.114													6	4	---	---	---	---	
SORCS1	114815	broad.mit.edu	37	10	108850678	108850679	+	Intron	DEL	AC	-	-	rs10569833		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:108850678_108850679delAC	uc001kym.2	-						SORCS1_uc001kyl.2_Intron|SORCS1_uc009xxs.2_Intron|SORCS1_uc001kyn.1_Intron|SORCS1_uc001kyo.2_Intron	NM_052918	NP_443150	Q8WY21	SORC1_HUMAN	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)		ATTCTAAAGTacacacacacac	0.317													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	110604705	110604706	+	IGR	INS	-	A	A	rs137867335	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:110604705_110604706insA								None (None upstream) : None (None downstream)																							ataatagactttttttttccta	0.000													2	4	---	---	---	---	
SHOC2	8036	broad.mit.edu	37	10	112707525	112707525	+	Intron	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:112707525delA	uc001kzl.3	+						SHOC2_uc009xxx.2_Intron|SHOC2_uc010qrg.1_Intron	NM_007373	NP_031399	Q9UQ13	SHOC2_HUMAN	soc-2 suppressor of clear homolog						fibroblast growth factor receptor signaling pathway|positive regulation of Ras protein signal transduction|Ras protein signal transduction	nucleus|protein phosphatase type 1 complex	protein phosphatase binding|protein phosphatase regulator activity			ovary(1)|skin(1)	2				Epithelial(162;0.000796)|all cancers(201;0.011)|BRCA - Breast invasive adenocarcinoma(275;0.126)		aataagtaccaaaaaaaaaaa	0.000													4	2	---	---	---	---	
GRK5	2869	broad.mit.edu	37	10	121067281	121067282	+	Intron	INS	-	T	T	rs139911881	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:121067281_121067282insT	uc001led.2	+						GRK5_uc009xzh.2_Intron|GRK5_uc010qta.1_Intron	NM_005308	NP_005299	P34947	GRK5_HUMAN	G protein-coupled receptor kinase 5						G-protein signaling, coupled to cAMP nucleotide second messenger|regulation of G-protein coupled receptor protein signaling pathway|tachykinin receptor signaling pathway	cytoplasm|plasma membrane|soluble fraction	ATP binding|G-protein coupled receptor kinase activity|phospholipid binding|protein kinase C binding|signal transducer activity			lung(2)|stomach(1)	3		Lung NSC(174;0.0971)|all_lung(145;0.127)|Ovarian(717;0.249)		all cancers(201;0.0227)		TGGTCTCCTGGTGGCGAGCCCT	0.317													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	125015169	125015169	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:125015169delT								BUB3 (90283 upstream) : GPR26 (410702 downstream)																							atcaccatcatcacaccacca	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	125863653	125863653	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:125863653delT								CHST15 (10447 upstream) : OAT (222219 downstream)																							gggatgcttctttgccctggg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	126020632	126020643	+	IGR	DEL	GTGTGTGTGTGT	-	-	rs10611727		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:126020632_126020643delGTGTGTGTGTGT								CHST15 (167426 upstream) : OAT (65229 downstream)																							ataaaatatagtgtgtgtgtgtgtgtgtgtgt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	10	130869064	130869065	+	IGR	DEL	AG	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr10:130869064_130869065delAG								MKI67 (944596 upstream) : MGMT (396389 downstream)																							agctagatacagagtgtcgact	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	1105237	1105238	+	IGR	DEL	GT	-	-	rs34353845		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:1105237_1105238delGT								MUC2 (820 upstream) : MUC5B (37236 downstream)																							gtgtgtgcacgtgtgtgtgtgc	0.035													5	3	---	---	---	---	
SYT9	143425	broad.mit.edu	37	11	7335345	7335345	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:7335345delT	uc001mfe.2	+						SYT9_uc001mfd.2_Intron|SYT9_uc009yfi.2_Intron	NM_175733	NP_783860	Q86SS6	SYT9_HUMAN	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)		ACAATATTGATTTTGAAGTTT	0.338													4	2	---	---	---	---	
SBF2	81846	broad.mit.edu	37	11	10243947	10243949	+	Intron	DEL	ACA	-	-	rs150029015		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:10243947_10243949delACA	uc001mib.2	-							NM_030962	NP_112224	Q86WG5	MTMRD_HUMAN	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)		aaaatacaacacaacaagtttga	0.000													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	25253349	25253349	+	IGR	DEL	C	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:25253349delC								LUZP2 (149167 upstream) : ANO3 (957480 downstream)																							AACTAATTTACCCCTTCTCTG	0.368													4	2	---	---	---	---	
ANO3	63982	broad.mit.edu	37	11	26664346	26664348	+	Intron	DEL	TTC	-	-	rs72405748		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:26664346_26664348delTTC	uc001mqt.3	+						ANO3_uc010rdr.1_Intron|ANO3_uc010rds.1_Intron|ANO3_uc010rdt.1_Intron	NM_031418	NP_113606	Q9BYT9	ANO3_HUMAN	transmembrane protein 16C							chloride channel complex	chloride channel activity			ovary(2)|central_nervous_system(1)|pancreas(1)	4						ttctttctctttcttcttctttt	0.167													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	29704224	29704224	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:29704224delA								None (None upstream) : KCNA4 (327542 downstream)																							GGTTGGATATAGGAGGAACTG	0.363													4	2	---	---	---	---	
DNAJC24	120526	broad.mit.edu	37	11	31418259	31418259	+	Intron	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:31418259delA	uc001msx.2	+						DNAJC24_uc001msw.1_Intron|DNAJC24_uc009yjm.2_Intron	NM_181706	NP_859057	Q6P3W2	DJC24_HUMAN	zinc finger, CSL domain containing 3						protein folding		heat shock protein binding|metal ion binding|unfolded protein binding			breast(2)	2						tctttgaaacaaaaacatgat	0.035													4	2	---	---	---	---	
WT1	7490	broad.mit.edu	37	11	32411281	32411282	+	Intron	INS	-	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:32411281_32411282insT	uc001mtn.1	-						WT1_uc001mtl.1_Intron|WT1_uc001mtm.1_Intron|WT1_uc001mto.1_Intron|WT1_uc001mtp.1_Intron|WT1_uc001mtq.1_Intron|WT1_uc009yjs.1_Intron	NM_024426	NP_077744	P19544	WT1_HUMAN	Wilms tumor 1 isoform D						adrenal cortex formation|branching involved in ureteric bud morphogenesis|camera-type eye development|cardiac muscle cell fate commitment|cellular response to cAMP|cellular response to gonadotropin stimulus|germ cell development|glomerular basement membrane development|glomerular visceral epithelial cell differentiation|induction of apoptosis|male genitalia development|male gonad development|mesenchymal to epithelial transition|metanephric epithelium development|metanephric S-shaped body morphogenesis|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of female gonad development|negative regulation of metanephric glomerular mesangial cell proliferation|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription, DNA-dependent|negative regulation of translation|positive regulation of male gonad development|positive regulation of transcription, DNA-dependent|posterior mesonephric tubule development|regulation of organ formation|RNA splicing|sex determination|vasculogenesis|visceral serous pericardium development	cytoplasm|nuclear speck|nucleoplasm	C2H2 zinc finger domain binding|RNA binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|zinc ion binding		EWSR1/WT1(231)	haematopoietic_and_lymphoid_tissue(318)|soft_tissue(231)|kidney(132)|pleura(2)|lung(2)|upper_aerodigestive_tract(1)|peritoneum(1)	687	Breast(20;0.247)		OV - Ovarian serous cystadenocarcinoma(30;0.128)			GTTATGTGTTGTTTTTTTTTTT	0.351			D|Mis|N|F|S	EWSR1	Wilms|desmoplastic small round cell tumor	Wilms			Denys-Drash_syndrome|Frasier_syndrome|Familial_Wilms_tumor|Wilms_tumor-Aniridia-ambiguous_Genitals-mental_Retardation				4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	33981911	33981912	+	IGR	INS	-	TT	TT	rs35227042		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:33981911_33981912insTT								LMO2 (68075 upstream) : CAPRIN1 (91318 downstream)																							ATGGAACCACCttttttttttt	0.238													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	34065099	34065099	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:34065099delA								LMO2 (151263 upstream) : CAPRIN1 (8131 downstream)																							agcagtagccaggggctagga	0.000													4	2	---	---	---	---	
PRR5L	79899	broad.mit.edu	37	11	36380044	36380045	+	Intron	INS	-	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:36380044_36380045insT	uc001mwo.3	+							NM_001160167	NP_001153639	Q6MZQ0	PRR5L_HUMAN	protor-2 isoform a											ovary(1)	1						aagtatgtacattttttaggca	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	47476615	47476615	+	IGR	DEL	C	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:47476615delC								RAPSN (5885 upstream) : CELF1 (11369 downstream)																							GTGATACAGTCGGGGGATTCA	0.463													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	48365579	48365579	+	IGR	DEL	G	-	-	rs67239811		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:48365579delG								OR4C3 (18099 upstream) : OR4C45 (1323 downstream)																							tgaaaaaaaagacatgtaatg	0.090													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	50380118	50380118	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:50380118delT								LOC646813 (315 upstream) : None (None downstream)																							TCTTCACAGGTTATTTTTTCC	0.323													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	59155668	59155669	+	IGR	DEL	CA	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:59155668_59155669delCA								OR5AN1 (22802 upstream) : OR5A2 (33785 downstream)																							ccaggaagatcaattctgtggc	0.000													4	2	---	---	---	---	
FLRT1	23769	broad.mit.edu	37	11	63882078	63882081	+	Intron	DEL	GATG	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:63882078_63882081delGATG	uc001nyi.1	+						MACROD1_uc001nyh.2_Intron	NM_013280	NP_037412	Q9NZU1	FLRT1_HUMAN	fibronectin leucine rich transmembrane protein						cell adhesion	integral to plasma membrane|proteinaceous extracellular matrix	protein binding, bridging|receptor signaling protein activity				0						atggtggacagatggatggatgga	0.000													4	2	---	---	---	---	
SNX32	254122	broad.mit.edu	37	11	65602570	65602571	+	Intron	DEL	TG	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:65602570_65602571delTG	uc001ofr.2	+						SNX32_uc009yqt.2_Intron|SNX32_uc010rop.1_Intron	NM_152760	NP_689973	Q86XE0	SNX32_HUMAN	sorting nexin 6B						cell communication|protein transport		phosphatidylinositol binding				0				READ - Rectum adenocarcinoma(159;0.171)		ctcgtgtgtctgtgtgtgtgta	0.158													4	2	---	---	---	---	
SART1	9092	broad.mit.edu	37	11	65731839	65731845	+	Intron	DEL	GCCCTTC	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:65731839_65731845delGCCCTTC	uc001ogl.2	+						SART1_uc009yqy.1_3'UTR|SART1_uc010rot.1_Intron	NM_005146	NP_005137	O43290	SNUT1_HUMAN	squamous cell carcinoma antigen recognized by T						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						ggaggccagggcccttcccagtgtcct	0.213													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	103647410	103647410	+	IGR	DEL	T	-	-	rs112613097		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:103647410delT								DYNC2H1 (296819 upstream) : PDGFD (130505 downstream)																							cttgggtttcttttttttttt	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	109471801	109471801	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:109471801delT								C11orf87 (171963 upstream) : ZC3H12C (492125 downstream)																							CTTTCACTGCTTTTTTTTTTT	0.398													4	2	---	---	---	---	
ARHGAP20	57569	broad.mit.edu	37	11	110495351	110495351	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:110495351delT	uc001pkz.1	-						ARHGAP20_uc001pky.1_Intron|ARHGAP20_uc009yyb.1_Intron|ARHGAP20_uc001pla.1_Intron	NM_020809	NP_065860	Q9P2F6	RHG20_HUMAN	Rho GTPase activating protein 20						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)		atgtatcctgttttttttttt	0.124													4	2	---	---	---	---	
RPS25	6230	broad.mit.edu	37	11	118887969	118887969	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:118887969delT	uc001pun.2	-						TRAPPC4_uc010ryn.1_5'Flank|TRAPPC4_uc010ryo.1_5'Flank|TRAPPC4_uc010ryp.1_5'Flank|TRAPPC4_uc001pup.2_5'Flank|TRAPPC4_uc010ryq.1_5'Flank	NM_001028	NP_001019	P62851	RS25_HUMAN	ribosomal protein S25						endocrine pancreas development|translational elongation|translational termination|viral transcription	cytosolic small ribosomal subunit|nucleolus	protein binding|RNA binding				0	all_hematologic(175;0.0839)	Medulloblastoma(222;0.0425)|all_neural(223;0.112)|all_hematologic(192;0.207)		BRCA - Breast invasive adenocarcinoma(274;7.55e-05)		CAAGCCACGCTTTTTTTTTTT	0.328													4	3	---	---	---	---	
CBL	867	broad.mit.edu	37	11	119170854	119170855	+	3'UTR	DEL	GT	-	-	rs149005633	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:119170854_119170855delGT	uc001pwe.2	+	16						NM_005188	NP_005179	P22681	CBL_HUMAN	Cas-Br-M (murine) ecotropic retroviral						epidermal growth factor receptor signaling pathway|negative regulation of apoptosis|negative regulation of epidermal growth factor receptor signaling pathway|positive regulation of phosphatidylinositol 3-kinase cascade|positive regulation of receptor-mediated endocytosis	cytosol|nucleus	calcium ion binding|sequence-specific DNA binding transcription factor activity|SH3 domain binding|signal transducer activity|ubiquitin-protein ligase activity|zinc ion binding			haematopoietic_and_lymphoid_tissue(135)|lung(10)|central_nervous_system(2)|ovary(1)|breast(1)	149		Medulloblastoma(222;0.0425)|Breast(348;0.052)|all_neural(223;0.112)		BRCA - Breast invasive adenocarcinoma(274;4.92e-05)|OV - Ovarian serous cystadenocarcinoma(223;0.000784)		GGATGTGGCCGTGTGTGTGTGT	0.426									CBL_gene-associated_Juvenile_Myelomonocytic_Leukemia_and_Developmental_Anomalies|Noonan_syndrome				5	3	---	---	---	---	
GRIK4	2900	broad.mit.edu	37	11	120604083	120604083	+	Intron	DEL	T	-	-	rs113095969		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:120604083delT	uc001pxn.2	+						GRIK4_uc009zav.1_Intron|GRIK4_uc009zaw.1_Intron|GRIK4_uc009zax.1_Intron	NM_014619	NP_055434	Q16099	GRIK4_HUMAN	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)	tttttttctgtttttttttgt	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	127207876	127207876	+	IGR	DEL	A	-	-	rs34987813		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:127207876delA								KIRREL3 (334521 upstream) : None (None downstream)																							ATGCGTCTTGAAAAAAAAAAA	0.274													3	3	---	---	---	---	
FLI1	2313	broad.mit.edu	37	11	128555449	128555450	+	5'Flank	INS	-	A	A	rs111642677		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:128555449_128555450insA	uc010sbt.1	+						uc001qek.2_Intron			Q01543	FLI1_HUMAN	SubName: Full=cDNA FLJ52260, highly similar to Friend leukemia integration 1 transcription factor;						hemostasis|organ morphogenesis	nucleus	protein binding|sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity		EWSR1/FLI1(2266)	bone(2210)|soft_tissue(48)|autonomic_ganglia(4)|central_nervous_system(4)|lung(3)|ovary(2)|pancreas(2)	2273	all_hematologic(175;0.0641)	Lung NSC(97;0.00588)|all_lung(97;0.00764)|Breast(109;0.0115)|Medulloblastoma(222;0.0523)|all_neural(223;0.0862)|all_hematologic(192;0.182)		OV - Ovarian serous cystadenocarcinoma(99;0.01)|LUSC - Lung squamous cell carcinoma(976;0.0324)|Lung(977;0.0327)		CTTCGACTTTCAAAAAAAAAAA	0.520			T	EWSR1	Ewing sarcoma								4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	11	133734557	133734558	+	IGR	INS	-	A	A	rs113603181		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr11:133734557_133734558insA								SPATA19 (19165 upstream) : LOC283174 (31772 downstream)																							CATTGAACAGGAAAAAAAAAAA	0.540													3	3	---	---	---	---	
ANO2	57101	broad.mit.edu	37	12	5890884	5890885	+	Intron	DEL	TA	-	-	rs142694230		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:5890884_5890885delTA	uc001qnm.2	-							NM_020373	NP_065106	Q9NQ90	ANO2_HUMAN	anoctamin 2							chloride channel complex|plasma membrane	intracellular calcium activated chloride channel activity			ovary(4)|large_intestine(2)|central_nervous_system(1)	7						ATGAAAGAGGTATACGGTCTGC	0.153													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	6526054	6526055	+	IGR	INS	-	CT	CT	rs150646241	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:6526054_6526055insCT								LTBR (25322 upstream) : LOC678655 (22112 downstream)																							tgtttttgtcacttttgttgat	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	6542768	6542769	+	IGR	INS	-	CCTC	CCTC	rs150396091	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:6542768_6542769insCCTC								LTBR (42036 upstream) : LOC678655 (5398 downstream)																							TCtccttccttcctccctcctt	0.010													5	3	---	---	---	---	
GABARAPL1	23710	broad.mit.edu	37	12	10375015	10375015	+	3'UTR	DEL	C	-	-	rs35964378		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:10375015delC	uc001qxs.2	+	4					GABARAPL1_uc001qxt.2_RNA|GABARAPL1_uc001qxu.2_RNA	NM_031412	NP_113600	Q9H0R8	GBRL1_HUMAN	GABA(A) receptor-associated protein like 1							autophagic vacuole|endoplasmic reticulum|Golgi apparatus|membrane|microtubule	beta-tubulin binding|GABA receptor binding				0						CACAGTACCACCCCAGGGGTG	0.473													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	10392081	10392082	+	IGR	INS	-	TTA	TTA	rs143361134		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:10392081_10392082insTTA								GABARAPL1 (16359 upstream) : KLRD1 (64968 downstream)																							tccttccttccttcttccttcc	0.045													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	12448340	12448341	+	IGR	INS	-	TGTT	TGTT	rs145719936	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:12448340_12448341insTGTT								LRP6 (28529 upstream) : MANSC1 (33877 downstream)																							accgcaagctgtgtttgtttgt	0.000													4	2	---	---	---	---	
LOH12CR1	118426	broad.mit.edu	37	12	12562341	12562341	+	Intron	DEL	T	-	-	rs145372922		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:12562341delT	uc001ral.2	+						LOH12CR1_uc009zhu.2_Intron	NM_058169	NP_477517	Q969J3	L12R1_HUMAN	LOH1CR12											ovary(1)	1		Prostate(47;0.0802)		BRCA - Breast invasive adenocarcinoma(232;0.0205)		gtgtgtgatgtttcccttcct	0.000													4	2	---	---	---	---	
SLCO1B1	10599	broad.mit.edu	37	12	21291356	21291356	+	Intron	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:21291356delA	uc001req.3	+							NM_006446	NP_006437	Q9Y6L6	SO1B1_HUMAN	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)	GAAATTTAAGAAAAAAATATG	0.284													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	25968846	25968846	+	IGR	DEL	C	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:25968846delC								IFLTD1 (167358 upstream) : RASSF8 (143123 downstream)																							ttttccttctcccctgttggt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	34207246	34207246	+	IGR	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:34207246delG								ALG10 (26012 upstream) : None (None downstream)																							TTTGATTTCAGGCATTGAATT	0.318													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	34853690	34853690	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:34853690delA								ALG10 (672456 upstream) : None (None downstream)																							ttcttcatataaaactagaca	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	38006984	38006984	+	IGR	DEL	C	-	-	rs138910985		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:38006984delC								None (None upstream) : ALG10B (703573 downstream)																							ttctcagaaactattttgtga	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	38039250	38039250	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:38039250delT								None (None upstream) : ALG10B (671307 downstream)																							acataaaagctagagagaagc	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	41538703	41538703	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:41538703delT								CNTN1 (74609 upstream) : PDZRN4 (44084 downstream)																							tcccatgctctttactctgcc	0.005													4	2	---	---	---	---	
FAM113B	91523	broad.mit.edu	37	12	47578449	47578449	+	Intron	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:47578449delA	uc001rpn.2	+							NM_138371	NP_612380	Q96HM7	F113B_HUMAN	hypothetical protein LOC91523								hydrolase activity			skin(3)|ovary(2)	5	Renal(347;0.138)|Lung SC(27;0.192)					caaagacactaaaaaaaaaaa	0.030													4	2	---	---	---	---	
RACGAP1	29127	broad.mit.edu	37	12	50390615	50390615	+	Intron	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:50390615delG	uc001rvt.2	-						RACGAP1_uc009zlm.1_Intron|RACGAP1_uc001rvs.2_Intron|RACGAP1_uc001rvu.2_Intron	NM_013277	NP_037409	Q9H0H5	RGAP1_HUMAN	Rac GTPase activating protein 1						blood coagulation|cytokinesis, actomyosin contractile ring assembly|cytokinesis, initiation of separation|embryo development|microtubule-based movement|neuroblast proliferation|regulation of small GTPase mediated signal transduction|small GTPase mediated signal transduction|spermatogenesis|sulfate transport	acrosomal vesicle|cytosol|microtubule|midbody|nucleus|spindle	alpha-tubulin binding|beta-tubulin binding|gamma-tubulin binding|GTPase activator activity|metal ion binding			kidney(1)	1						gaaggaaaaaggggcggggaa	0.144													3	3	---	---	---	---	
TFCP2	7024	broad.mit.edu	37	12	51496212	51496212	+	Intron	DEL	A	-	-	rs146048465		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:51496212delA	uc001rxw.2	-						TFCP2_uc001rxv.1_Intron|TFCP2_uc009zlx.1_Intron|TFCP2_uc001rxx.2_Intron|TFCP2_uc009zly.1_Intron	NM_005653	NP_005644	Q12800	TFCP2_HUMAN	transcription factor CP2						regulation of transcription from RNA polymerase II promoter	nucleus	DNA binding|protein binding|sequence-specific DNA binding transcription factor activity			ovary(1)	1						cccatctcttaaaaaaaaaaT	0.015													4	2	---	---	---	---	
STAT2	6773	broad.mit.edu	37	12	56742562	56742563	+	Frame_Shift_Ins	INS	-	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:56742562_56742563insT	uc001slc.2	-	18	1680_1681	c.1602_1603insA	c.(1600-1605)CCATTAfs	p.P534fs	STAT2_uc001slb.2_Frame_Shift_Ins_p.P76fs|STAT2_uc001sld.2_Frame_Shift_Ins_p.P530fs	NM_005419	NP_005410	P52630	STAT2_HUMAN	signal transducer and activator of transcription	534_535					interspecies interaction between organisms|JAK-STAT cascade|regulation of transcription from RNA polymerase II promoter|regulation of type I interferon-mediated signaling pathway|response to virus|type I interferon-mediated signaling pathway	cytosol|nucleoplasm|plasma membrane	calcium ion binding|DNA binding|protein binding|sequence-specific DNA binding transcription factor activity|signal transducer activity			ovary(1)|lung(1)|kidney(1)	3						CAGGACAATAATGGATCCTCAG	0.530													24	16	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	59524661	59524664	+	IGR	DEL	GTGT	-	-	rs34665569		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:59524661_59524664delGTGT								LRIG3 (210399 upstream) : SLC16A7 (465184 downstream)																							CCCAAAGTAAgtgtgtgtgtgtgt	0.284													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	63020650	63020658	+	IGR	DEL	AATCCCCCA	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:63020650_63020658delAATCCCCCA								MIRLET7I (23101 upstream) : PPM1H (17105 downstream)																							TCATCTAGACAATCCCCCAAATCCCCCAA	0.292													4	2	---	---	---	---	
PPFIA2	8499	broad.mit.edu	37	12	81700002	81700002	+	Intron	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:81700002delA	uc001szo.1	-						PPFIA2_uc010sue.1_Intron|PPFIA2_uc010sug.1_Intron|PPFIA2_uc010suh.1_Intron|PPFIA2_uc010sui.1_Intron|PPFIA2_uc010suj.1_Intron|PPFIA2_uc009zsi.1_Intron|PPFIA2_uc010suf.1_Intron|PPFIA2_uc009zsh.2_Intron	NM_003625	NP_003616	B7Z663	B7Z663_HUMAN	PTPRF interacting protein alpha 2											ovary(3)|lung(2)|pancreas(1)	6						GACATTAAAGAAAAAAAAAAT	0.224													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	84021828	84021828	+	IGR	DEL	A	-	-	rs35994654		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:84021828delA								TMTC2 (493765 upstream) : None (None downstream)																							actccatttcaaaaaaaaaaa	0.144													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	90123454	90123457	+	IGR	DEL	CAAA	-	-	rs111945181		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:90123454_90123457delCAAA								LOC338758 (17726 upstream) : None (None downstream)																							gactccgtctcaaacaaacaaaca	0.118													3	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	91293653	91293653	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:91293653delT								None (None upstream) : C12orf12 (52340 downstream)																							ATCAGACTACTTTTGGCTGTG	0.383													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	92947111	92947112	+	IGR	DEL	GT	-	-	rs35163022		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:92947111_92947112delGT								CLLU1 (69655 upstream) : C12orf74 (149728 downstream)																							GAGTGGAGACgtgtgtgtgtgt	0.208													4	2	---	---	---	---	
VEZT	55591	broad.mit.edu	37	12	95674301	95674302	+	Intron	DEL	AC	-	-	rs148227689		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:95674301_95674302delAC	uc001tdz.2	+						VEZT_uc009ztb.1_Intron|VEZT_uc009ztc.1_Intron|VEZT_uc001tdy.2_Intron	NM_017599	NP_060069	Q9HBM0	VEZA_HUMAN	vezatin, adherens junctions transmembrane							acrosomal vesicle|adherens junction|integral to membrane|nucleus				ovary(1)	1						tcatatgtgtacacacacacac	0.139													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	95821250	95821251	+	IGR	DEL	AA	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:95821250_95821251delAA								MIR331 (118961 upstream) : METAP2 (46571 downstream)																							caacaacaacaaaaaaaaaaaa	0.000													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	106333879	106333879	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:106333879delT								C12orf75 (568584 upstream) : NUAK1 (123246 downstream)																							TCTAGCTACCTTGTCATTATC	0.478													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	109130067	109130068	+	IGR	DEL	GA	-	-	rs34151365		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:109130067_109130068delGA								CORO1C (4772 upstream) : SSH1 (46399 downstream)																							gagagggagggagagagagaga	0.020													4	2	---	---	---	---	
C12orf51	283450	broad.mit.edu	37	12	112640766	112640767	+	Intron	DEL	TC	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:112640766_112640767delTC	uc009zwc.2	-						C12orf51_uc001ttr.1_3'UTR	NM_001109662	NP_001103132			chromosome 12 open reading frame 51											ovary(1)|lung(1)	2						cttttttttttcctttggagac	0.005													4	2	---	---	---	---	
RASAL1	8437	broad.mit.edu	37	12	113558009	113558010	+	Intron	INS	-	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:113558009_113558010insA	uc001tum.1	-						RASAL1_uc010syp.1_Intron|RASAL1_uc001tul.2_Intron|RASAL1_uc001tun.1_Intron|RASAL1_uc010syq.1_Intron|RASAL1_uc001tuo.3_Intron|RASAL1_uc010syr.1_Intron	NM_004658	NP_004649	O95294	RASL1_HUMAN	RAS protein activator like 1						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						CTTCCCACCCCTGCTTAGCATC	0.584													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	115281763	115281765	+	IGR	DEL	AGA	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:115281763_115281765delAGA								TBX3 (159794 upstream) : None (None downstream)																							CTACATTTCTAGAAGAAGACATT	0.345													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	116095578	116095578	+	IGR	DEL	C	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:116095578delC								TBX3 (973609 upstream) : MED13L (300805 downstream)																							tcctcctcttcccctcctcct	0.149													4	2	---	---	---	---	
KSR2	283455	broad.mit.edu	37	12	118044406	118044407	+	Intron	INS	-	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:118044406_118044407insT	uc001two.2	-							NM_173598	NP_775869	Q6VAB6	KSR2_HUMAN	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)					tccttctttcctccttccttcc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	124762349	124762349	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:124762349delT								ZNF664 (262382 upstream) : FAM101A (11361 downstream)																							ccccctctccttccttctcct	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	126638881	126638886	+	IGR	DEL	ACACAC	-	-	rs113937666		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:126638881_126638886delACACAC								TMEM132B (495292 upstream) : LOC100128554 (288141 downstream)																							AAAAAGAAGTacacacacacacacac	0.330													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	12	132144489	132144489	+	IGR	DEL	T	-	-	rs10711967		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:132144489delT								LOC116437 (447014 upstream) : SFRS8 (51146 downstream)																							AGGATAGAGGTTTGGGGGATG	0.597													6	3	---	---	---	---	
FBRSL1	57666	broad.mit.edu	37	12	133108137	133108138	+	Intron	DEL	GT	-	-	rs72189418		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr12:133108137_133108138delGT	uc001ukf.2	+							NM_001142641	NP_001136113	Q9HCM7	FBSL_HUMAN	fibrosin-like 1											central_nervous_system(2)	2						Ctgtgtgtgcgtgtgtgtgtgt	0.322													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	19320620	19320620	+	5'Flank	DEL	T	-	-	rs113823012		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:19320620delT	uc001ulv.1	-											DQ586768																		taggcctcactgaccaagtcc	0.139													4	6	---	---	---	---	
SPATA13	221178	broad.mit.edu	37	13	24582707	24582708	+	Intron	DEL	GA	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:24582707_24582708delGA	uc001upd.1	+						C1QTNF9_uc001upe.2_Intron|uc001upc.2_Intron	NM_153023	NP_694568	Q96N96	SPT13_HUMAN	spermatogenesis associated 13						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)		AAGGGGAGGGgagagagagaga	0.490													4	2	---	---	---	---	
RNF17	56163	broad.mit.edu	37	13	25376818	25376820	+	Intron	DEL	GAA	-	-	rs5802306		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:25376818_25376820delGAA	uc001upr.2	+						RNF17_uc010tdd.1_Intron|RNF17_uc010aab.2_Intron|RNF17_uc010tde.1_Intron|RNF17_uc001ups.2_Intron	NM_031277	NP_112567	Q9BXT8	RNF17_HUMAN	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)		TAACATACCTGAAGAAGTGAAAA	0.266													3	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	25919936	25919937	+	IGR	DEL	AG	-	-	rs58108978		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:25919936_25919937delAG								NUPL1 (3376 upstream) : ATP8A2 (26272 downstream)																							CCAGGGAGACAGGCAAGAATGA	0.465													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	34646551	34646552	+	IGR	DEL	CA	-	-	rs66933289		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:34646551_34646552delCA								RFC3 (105857 upstream) : NBEA (869904 downstream)																							cacgtgcgtgcacacacacaca	0.163													3	3	---	---	---	---	
GTF2F2	2963	broad.mit.edu	37	13	45700805	45700806	+	Intron	DEL	TA	-	-	rs10711438		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:45700805_45700806delTA	uc001uzw.2	+						GTF2F2_uc001uzv.2_Intron	NM_004128	NP_004119	P13984	T2FB_HUMAN	general transcription factor IIF, polypeptide 2,						mRNA capping|nuclear mRNA splicing, via spliceosome|positive regulation of viral transcription|transcription elongation from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter|viral reproduction	microtubule cytoskeleton|transcription factor TFIIF complex	ATP binding|ATP-dependent helicase activity|DNA binding|protein binding				0		Lung NSC(96;0.00115)|Prostate(109;0.00578)|Breast(139;0.0192)|Lung SC(185;0.0367)|Hepatocellular(98;0.133)	KIRC - Kidney renal clear cell carcinoma(16;0.234)	GBM - Glioblastoma multiforme(144;0.000647)		acggacatggtatatatactgt	0.223													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	45885631	45885632	+	IGR	INS	-	GAG	GAG	rs145789083	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:45885631_45885632insGAG								GTF2F2 (27394 upstream) : TPT1 (25672 downstream)																							AAAACAGGGTTgaggaggagga	0.396													4	2	---	---	---	---	
RB1	5925	broad.mit.edu	37	13	48888915	48888916	+	Intron	INS	-	A	A	rs35589400		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:48888915_48888916insA	uc001vcb.2	+						RB1_uc010acs.1_Intron	NM_000321	NP_000312	P06400	RB_HUMAN	retinoblastoma 1						androgen receptor signaling pathway|cell cycle arrest|chromatin remodeling|G1 phase of mitotic cell cycle|interspecies interaction between organisms|maintenance of mitotic sister chromatid cohesion|mitotic cell cycle G1/S transition checkpoint|myoblast differentiation|negative regulation of cell growth|negative regulation of protein kinase activity|negative regulation of S phase of mitotic cell cycle|negative regulation of sequence-specific DNA binding transcription factor activity|positive regulation of mitotic metaphase/anaphase transition|protein localization to chromosome, centromeric region|Ras protein signal transduction|regulation of centromere complex assembly|regulation of cohesin localization to chromatin|regulation of lipid kinase activity|regulation of transcription involved in G1/S phase of mitotic cell cycle|S phase of mitotic cell cycle|sister chromatid biorientation	chromatin|PML body|Rb-E2F complex|SWI/SNF complex	androgen receptor binding|DNA binding|kinase binding|phosphoprotein binding|sequence-specific DNA binding transcription factor activity|transcription coactivator activity|transcription factor binding|ubiquitin protein ligase binding	p.0?(13)|p.?(1)		lung(94)|eye(89)|central_nervous_system(47)|bone(22)|breast(21)|urinary_tract(17)|haematopoietic_and_lymphoid_tissue(14)|ovary(10)|prostate(9)|soft_tissue(8)|skin(7)|endometrium(5)|cervix(3)|liver(3)|salivary_gland(2)|stomach(2)|oesophagus(1)|adrenal_gland(1)|kidney(1)|gastrointestinal_tract_(site_indeterminate)(1)|pituitary(1)	358		all_cancers(8;6.9e-71)|all_epithelial(8;4.61e-22)|Acute lymphoblastic leukemia(8;1.1e-21)|all_hematologic(8;2.3e-21)|all_lung(13;1.51e-09)|Lung NSC(96;7.03e-07)|Breast(56;1.53e-05)|Prostate(109;0.000493)|Myeloproliferative disorder(33;0.0179)|Hepatocellular(98;0.0207)|all_neural(104;0.0227)|Glioma(44;0.0286)|Lung SC(185;0.0301)		GBM - Glioblastoma multiforme(2;9.98e-18)|LUSC - Lung squamous cell carcinoma(3;0.013)	Insulin Glargine recombinant(DB00047)|Insulin Lyspro recombinant(DB00046)|Insulin recombinant(DB00030)|Insulin, porcine(DB00071)	ccagcctgggcaaAAAAAAAAA	0.005		6	D|Mis|N|F|S		retinoblastoma|sarcoma|breast|small cell lung	retinoblastoma|sarcoma|breast|small cell lung			Hereditary_Retinoblastoma	TCGA GBM(7;6.82e-08)|TSP Lung(12;0.097)|TCGA Ovarian(6;0.080)			4	2	---	---	---	---	
TDRD3	81550	broad.mit.edu	37	13	61060423	61060423	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:61060423delT	uc001via.2	+						TDRD3_uc010aef.2_Intron|TDRD3_uc001vhz.3_Intron|TDRD3_uc010aeg.2_Intron|TDRD3_uc001vib.3_Intron	NM_030794	NP_110421	Q9H7E2	TDRD3_HUMAN	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)		TAGTTGCCACTTTTTTGGGGA	0.373													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	61592125	61592126	+	IGR	DEL	CA	-	-	rs35231861		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:61592125_61592126delCA								TDRD3 (444113 upstream) : PCDH20 (391695 downstream)																							AGcacacatgcacacacacaca	0.337													3	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	63630275	63630278	+	IGR	DEL	TTTA	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:63630275_63630278delTTTA								None (None upstream) : OR7E156P (681290 downstream)																							TTGAAAGCTGTTTATTTATTTGTT	0.250													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	13	98505045	98505047	+	IGR	DEL	GAT	-	-	rs34544811		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr13:98505045_98505047delGAT								RAP2A (384794 upstream) : IPO5 (100882 downstream)																							tggatggatagatggttagatga	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	19012728	19012729	+	IGR	INS	-	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:19012728_19012729insC								None (None upstream) : OR11H12 (364865 downstream)																							agtgtttcaaactgctctatga	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	19035224	19035225	+	IGR	INS	-	T	T	rs142975778		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:19035224_19035225insT								None (None upstream) : OR11H12 (342369 downstream)																							agcgttccaaatattcacttgc	0.000													8	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	19109661	19109662	+	IGR	INS	-	T	T	rs71203529		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:19109661_19109662insT								None (None upstream) : OR11H12 (267932 downstream)																							GGGTTGGGTCCTGGCTGCAGGA	0.683													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	19611166	19611166	+	Intron	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:19611166delA	uc001vvi.2	+											Homo sapiens prostate-specific P775P mRNA sequence.																		ccccaggctcaggtgatcctc	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	20308363	20308364	+	IGR	INS	-	A	A	rs143393005	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:20308363_20308364insA								OR4N2 (11833 upstream) : OR4K2 (36063 downstream)																							actcaaaggggaaaaaaaaaac	0.035													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	20315828	20315829	+	IGR	INS	-	T	T	rs150158951	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:20315828_20315829insT								OR4N2 (19298 upstream) : OR4K2 (28598 downstream)																							TTTCTCAGATCTTTTTTTGCAC	0.416													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	23164481	23164481	+	IGR	DEL	T	-	-	rs66612033		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:23164481delT								ABHD4 (83224 upstream) : OXA1L (71250 downstream)																							ATATATTTGAttttttttttt	0.179													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	27847096	27847096	+	Intron	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:27847096delA	uc010amc.1	-											Homo sapiens cDNA clone IMAGE:40107853.																		gtcttgacagaaaaaaaaaaa	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	28699878	28699879	+	IGR	DEL	GA	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:28699878_28699879delGA								None (None upstream) : FOXG1 (536408 downstream)																							gtttcaccatgagaggggtgct	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	29735272	29735273	+	IGR	DEL	AC	-	-	rs72019699		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:29735272_29735273delAC								C14orf23 (471273 upstream) : PRKD1 (310416 downstream)																							acatacacagacacacacacac	0.277													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	47296804	47296804	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:47296804delA								RPL10L (175776 upstream) : MDGA2 (12026 downstream)																							TGGGGAAATGAAAAAAAAAAA	0.363													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	56451672	56451672	+	IGR	DEL	A	-	-	rs35122113		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:56451672delA								C14orf34 (188280 upstream) : PELI2 (133421 downstream)																							ggggcacaataaaggtgctca	0.015													1	6	---	---	---	---	
C14orf53	440184	broad.mit.edu	37	14	66953309	66953310	+	Intron	DEL	TC	-	-	rs10569333		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:66953309_66953310delTC	uc001xiu.3	+						C14orf53_uc010tsq.1_Intron|C14orf53_uc001xiv.3_Intron	NR_024338				Homo sapiens similar to CG32662-PA, mRNA (cDNA clone IMAGE:5163906).												0						GAAAAGAGGGtctctctctctc	0.356													3	3	---	---	---	---	
ZFYVE26	23503	broad.mit.edu	37	14	68219943	68219943	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:68219943delT	uc001xka.2	-						ZFYVE26_uc010tsz.1_Intron|ZFYVE26_uc001xkb.2_Intron	NM_015346	NP_056161	Q68DK2	ZFY26_HUMAN	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)		CTGAAGAGACTCTGCCCCTCA	0.557													4	2	---	---	---	---	
NUMB	8650	broad.mit.edu	37	14	73817403	73817404	+	Intron	INS	-	T	T	rs140622174		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:73817403_73817404insT	uc001xny.1	-						NUMB_uc010aro.1_Intron|NUMB_uc010arp.1_Intron|NUMB_uc010arq.1_Intron|NUMB_uc010arr.1_Intron|NUMB_uc001xoa.1_Intron|NUMB_uc001xnz.1_Intron|NUMB_uc001xob.1_Intron|NUMB_uc001xod.1_Intron|NUMB_uc001xoc.1_Intron|NUMB_uc010ars.1_Intron|NUMB_uc001xof.1_Intron|NUMB_uc001xog.2_Intron|NUMB_uc001xoh.1_Intron	NM_001005743	NP_001005743	P49757	NUMB_HUMAN	numb homolog isoform 1						axon guidance|lateral ventricle development|neuroblast division in subventricular zone|positive regulation of neurogenesis	integral to plasma membrane				ovary(2)|central_nervous_system(1)|skin(1)	4				BRCA - Breast invasive adenocarcinoma(234;0.00471)|OV - Ovarian serous cystadenocarcinoma(108;0.161)		ccacatctagcttttttttttt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	83890741	83890742	+	IGR	INS	-	GT	GT	rs1825537		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:83890741_83890742insGT								None (None upstream) : None (None downstream)																							ATGGAAATTTCgtgtgtgtgtg	0.198													4	2	---	---	---	---	
RIN3	79890	broad.mit.edu	37	14	92990003	92990004	+	Intron	INS	-	T	T	rs145551624	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:92990003_92990004insT	uc001yap.2	+						RIN3_uc010auk.2_Intron	NM_024832	NP_079108	Q8TB24	RIN3_HUMAN	Ras and Rab interactor 3						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)				GATTGCAAACATTTTTTTTTCA	0.411													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	99217405	99217406	+	IGR	INS	-	A	A	rs144001957	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:99217405_99217406insA								C14orf177 (33308 upstream) : BCL11B (418221 downstream)																							ACTCCTAAGATGCCACCTTAAC	0.386													3	3	---	---	---	---	
CCDC85C	317762	broad.mit.edu	37	14	100044645	100044646	+	Intron	INS	-	GT	GT	rs144925029	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:100044645_100044646insGT	uc010avr.2	-							NM_001144995	NP_001138467	A6NKD9	CC85C_HUMAN	coiled-coil domain containing 85C												0						ATCCCCCATCAgtgtgtgtgtg	0.465													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	104341300	104341300	+	IGR	DEL	A	-	-	rs36110612		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:104341300delA								PPP1R13B (27373 upstream) : C14orf2 (37326 downstream)																							TCTGGGGCTGACCCAACACTG	0.512													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	14	105121539	105121542	+	IGR	DEL	GGAA	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:105121539_105121542delGGAA								TMEM179 (50442 upstream) : INF2 (34401 downstream)																							agggaaggagggaaggaaggaagg	0.025													4	2	---	---	---	---	
ADAM6	8755	broad.mit.edu	37	14	106099213	106099214	+	Intron	INS	-	A	A	rs151211370	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:106099213_106099214insA	uc010tyt.1	-						uc001yrs.2_Intron|uc001yrt.2_Intron|uc001yrw.1_Intron|uc001yrx.1_Intron					Parts of antibodies, mostly variable regions.												0						tctctcgacttacaggtgttgc	0.000													4	3	---	---	---	---	
ADAM6	8755	broad.mit.edu	37	14	107039883	107039884	+	Intron	INS	-	A	A	rs138930211	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:107039883_107039884insA	uc010tyt.1	-											Parts of antibodies, mostly variable regions.												0						AGATGTGCTGGAACTCAAGGTC	0.460													2	4	---	---	---	---	
ADAM6	8755	broad.mit.edu	37	14	107161674	107161674	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:107161674delT	uc010tyt.1	-											Parts of antibodies, mostly variable regions.												0						AGAAGCCGACTTTAAAAAGAT	0.348													5	3	---	---	---	---	
ADAM6	8755	broad.mit.edu	37	14	107273697	107273697	+	Intron	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr14:107273697delG	uc010tyt.1	-											Parts of antibodies, mostly variable regions.												0						GCCCCCGGCTGACCTGCGTGC	0.607													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	20016203	20016203	+	IGR	DEL	C	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:20016203delC								None (None upstream) : GOLGA6L6 (720891 downstream)																							gcagatcctacaaaaagagtt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	20108219	20108220	+	IGR	DEL	AA	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:20108219_20108220delAA								None (None upstream) : GOLGA6L6 (628874 downstream)																							tggtgaaatgaaatgaaatgaa	0.000													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	20110496	20110497	+	IGR	DEL	CA	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:20110496_20110497delCA								None (None upstream) : GOLGA6L6 (626597 downstream)																							AATAATCTCTCAACTATTTGAA	0.262													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	21905915	21905916	+	IGR	INS	-	A	A	rs113231430		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:21905915_21905916insA								NF1P1 (771290 upstream) : LOC646214 (26598 downstream)																							ttggatgagagaaaaaacctct	0.000													3	3	---	---	---	---	
OR4N4	283694	broad.mit.edu	37	15	22311079	22311080	+	Intron	INS	-	T	T	rs138972545	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:22311079_22311080insT	uc001yuc.1	+						LOC727924_uc001ytz.1_Intron|LOC727924_uc001yua.2_Intron|LOC727924_uc001yub.1_Intron	NM_001005241	NP_001005241	Q8N0Y3	OR4N4_HUMAN	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)		agtgacagctattttgatattc	0.000													2	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	22542333	22542334	+	IGR	DEL	CT	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:22542333_22542334delCT								MIR1268 (29053 upstream) : GOLGA8DP (159951 downstream)																							GCCTGAGCCCCTGAGTCCTCTC	0.644													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	31766947	31766948	+	IGR	INS	-	T	T	rs148556085	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:31766947_31766948insT								KLF13 (96846 upstream) : OTUD7A (8382 downstream)																							cattaaacctctttttttttta	0.064													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	34767407	34767407	+	IGR	DEL	C	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:34767407delC								GOLGA8A (85406 upstream) : GOLGA8B (50078 downstream)																							GCTCTCCTGTCtttttttttt	0.204													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	38362409	38362410	+	IGR	INS	-	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:38362409_38362410insT								TMCO5A (102484 upstream) : SPRED1 (182642 downstream)																							agacaagccactttacctctct	0.233													4	2	---	---	---	---	
RAD51	5888	broad.mit.edu	37	15	40993575	40993575	+	Intron	DEL	T	-	-	rs67977099		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:40993575delT	uc001zmi.3	+						RAD51_uc010bbw.2_Intron|RAD51_uc010bbx.2_Intron|RAD51_uc001zmk.3_Intron|RAD51_uc001zml.3_Intron|RAD51_uc001zmm.1_Intron|RAD51_uc001zmn.1_Intron	NM_002875	NP_002866	Q06609	RAD51_HUMAN	RAD51 homolog protein isoform 1						DNA recombinase assembly|DNA unwinding involved in replication|mitotic recombination|positive regulation of DNA ligation|protein homooligomerization|reciprocal meiotic recombination	mitochondrial matrix|nucleus|perinuclear region of cytoplasm|PML body	ATP binding|damaged DNA binding|double-stranded DNA binding|identical protein binding|protein C-terminus binding|single-stranded DNA binding|single-stranded DNA-dependent ATPase activity				0		all_cancers(109;1.19e-18)|all_epithelial(112;2.33e-15)|Lung NSC(122;5.34e-11)|all_lung(180;1.33e-09)|Melanoma(134;0.0574)|Ovarian(310;0.0822)|Colorectal(260;0.0946)		GBM - Glioblastoma multiforme(113;1.45e-05)|BRCA - Breast invasive adenocarcinoma(123;0.000421)|COAD - Colon adenocarcinoma(120;0.163)		tttttctttcttttttttttt	0.124								Homologous_recombination					2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	44015512	44015512	+	Intron	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:44015512delG	uc010uec.1	-											Homo sapiens cDNA FLJ16411 fis, clone BRACE2016362.																		GAAAGAAAGAGAGAAGGGGCA	0.114													4	2	---	---	---	---	
EIF3J	8669	broad.mit.edu	37	15	44829446	44829446	+	Intron	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:44829446delG	uc001ztv.2	+						uc001ztu.2_5'Flank|EIF3J_uc010ueg.1_Intron|EIF3J_uc001ztw.2_Intron	NM_003758	NP_003749	O75822	EIF3J_HUMAN	eukaryotic translation initiation factor 3,							cytosol|eukaryotic translation initiation factor 3 complex	protein binding|translation initiation factor activity				0		all_cancers(109;2.81e-14)|all_epithelial(112;2.8e-12)|Lung NSC(122;1.66e-07)|all_lung(180;1.47e-06)|Melanoma(134;0.0122)		all cancers(107;3.13e-20)|GBM - Glioblastoma multiforme(94;9.81e-07)|COAD - Colon adenocarcinoma(120;0.0754)|Colorectal(105;0.0758)		GTGAGGAGAAGTTGCTGGGGC	0.473													3	4	---	---	---	---	
SEMA6D	80031	broad.mit.edu	37	15	48034491	48034491	+	Intron	DEL	A	-	-	rs79724998		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:48034491delA	uc010bek.2	+						SEMA6D_uc001zvw.2_Intron|SEMA6D_uc001zvx.1_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	Q8NFY4	SEM6D_HUMAN	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)		ttgtccctttaaaaaaaaacc	0.100													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	48142975	48142975	+	IGR	DEL	C	-	-	rs34703120		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:48142975delC								SEMA6D (76556 upstream) : SLC24A5 (270194 downstream)																							agagaaagaactttttaggtg	0.000													3	3	---	---	---	---	
WDR72	256764	broad.mit.edu	37	15	54014944	54014944	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:54014944delT	uc002acj.2	-						WDR72_uc010bfi.1_Intron	NM_182758	NP_877435	Q3MJ13	WDR72_HUMAN	WD repeat domain 72											lung(1)|skin(1)	2				all cancers(107;0.0511)		TCCATTGTAGTTTTTAAAAAG	0.224													20	13	---	---	---	---	
UNC13C	440279	broad.mit.edu	37	15	54789598	54789599	+	Intron	INS	-	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:54789598_54789599insG	uc002ack.2	+							NM_001080534	NP_001074003	Q8NB66	UN13C_HUMAN	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)		ctccctggactggagaaacaaT	0.020													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	56367311	56367313	+	IGR	DEL	AAG	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:56367311_56367313delAAG								NEDD4 (81476 upstream) : RFX7 (12166 downstream)																							tgaagacaataagaagattagtg	0.000													1	6	---	---	---	---	
MYO1E	4643	broad.mit.edu	37	15	59486904	59486904	+	Intron	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:59486904delG	uc002aga.2	-							NM_004998	NP_004989	Q12965	MYO1E_HUMAN	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)		TATGGACAGTGGGATCAGGCC	0.542													4	2	---	---	---	---	
IGDCC3	9543	broad.mit.edu	37	15	65623124	65623125	+	Intron	INS	-	TCTA	TCTA	rs150339477	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:65623124_65623125insTCTA	uc002aos.2	-						IGDCC3_uc002aor.1_5'Flank	NM_004884	NP_004875	Q8IVU1	IGDC3_HUMAN	putative neuronal cell adhesion molecule											ovary(3)	3						CCAGTGGAAGCTCTATCTTTCT	0.569													6	6	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	70484508	70484508	+	IGR	DEL	T	-	-	rs67786493		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:70484508delT								TLE3 (94252 upstream) : UACA (462387 downstream)																							ctgcaaagacttttttttttt	0.040													3	3	---	---	---	---	
SCAPER	49855	broad.mit.edu	37	15	76658002	76658002	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:76658002delT	uc002bby.2	-						SCAPER_uc010bkr.2_Intron|SCAPER_uc002bbx.2_Intron	NM_020843	NP_065894	Q9BY12	SCAPE_HUMAN	S-phase cyclin A-associated protein in the ER							endoplasmic reticulum|nucleus	zinc ion binding			large_intestine(1)|lung(1)|ovary(1)	3						TTATTTTGGATTTTTTTTGAA	0.368													4	2	---	---	---	---	
SCAPER	49855	broad.mit.edu	37	15	76722057	76722057	+	Intron	DEL	G	-	-	rs35990555		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:76722057delG	uc002bby.2	-						SCAPER_uc010bkr.2_Intron|SCAPER_uc002bbx.2_Intron|SCAPER_uc002bbz.1_Intron	NM_020843	NP_065894	Q9BY12	SCAPE_HUMAN	S-phase cyclin A-associated protein in the ER							endoplasmic reticulum|nucleus	zinc ion binding			large_intestine(1)|lung(1)|ovary(1)	3						aattttaaaagggaaacagca	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	79832069	79832069	+	IGR	DEL	C	-	-	rs147254335		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:79832069delC								KIAA1024 (67427 upstream) : MTHFS (305251 downstream)																							tctccacccaccccatcacca	0.000													4	2	---	---	---	---	
GOLGA6L10	647042	broad.mit.edu	37	15	83014189	83014190	+	Intron	DEL	AA	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:83014189_83014190delAA	uc010unt.1	-						uc002bhl.2_Intron|uc002bhm.2_Intron|GOLGA6L10_uc010uny.1_Intron|GOLGA6L10_uc002bia.1_5'Flank			A6NI86	GG6LA_HUMAN	Homo sapiens cDNA FLJ40113 fis, clone TESTI2008621.												0						CTGGATTCTCAAAAAAAAAAAA	0.515													8	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	92918427	92918427	+	IGR	DEL	A	-	-	rs74604925		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:92918427delA								SLCO3A1 (202762 upstream) : ST8SIA2 (18713 downstream)																							cacaGACAGGAAAAAAAAAAA	0.030													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	15	96373495	96373496	+	IGR	DEL	AT	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:96373495_96373496delAT								LOC145820 (322421 upstream) : NR2F2 (495661 downstream)																							acacacacacatacacacGGTT	0.361													4	2	---	---	---	---	
LRRK1	79705	broad.mit.edu	37	15	101551797	101551798	+	Intron	INS	-	TG	TG			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr15:101551797_101551798insTG	uc002bwr.2	+						LRRK1_uc010usb.1_Intron|LRRK1_uc010usc.1_Intron	NM_024652	NP_078928	Q38SD2	LRRK1_HUMAN	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)			GAAtgtgtgtgtgtgtgtgtgc	0.342													2	4	---	---	---	---	
LMF1	64788	broad.mit.edu	37	16	964539	964540	+	Intron	INS	-	C	C	rs145177489		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:964539_964540insC	uc002ckj.2	-						LMF1_uc010brh.2_Intron|LMF1_uc010bri.2_Intron|LMF1_uc002ckk.2_Intron|LMF1_uc010uuu.1_Intron|LMF1_uc010uuv.1_Intron	NM_022773	NP_073610	Q96S06	LMF1_HUMAN	lipase maturation factor 1							endoplasmic reticulum membrane|integral to membrane					0		Hepatocellular(780;0.00308)				ACTCCCTCCCTCCTTCCCATGA	0.599													6	3	---	---	---	---	
ALG1	56052	broad.mit.edu	37	16	5134976	5134976	+	3'UTR	DEL	C	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:5134976delC	uc002cym.2	+	13					ALG1_uc002cyj.2_3'UTR|ALG1_uc002cyn.2_3'UTR|ALG1_uc010bue.2_3'UTR|ALG1_uc010uxy.1_3'UTR|FAM86A_uc002cyo.2_3'UTR|FAM86A_uc002cyp.2_3'UTR	NM_019109	NP_061982	Q9BT22	ALG1_HUMAN	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)				AGCAGCACCTCCCAGTGGCCA	0.542													15	19	---	---	---	---	
A2BP1	54715	broad.mit.edu	37	16	7205597	7205597	+	Intron	DEL	A	-	-	rs113651468		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:7205597delA	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	Q9NWB1	RFOX1_HUMAN	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)		cacttgtctgaaaaaaaaaaa	0.214													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	12697428	12697428	+	IGR	DEL	G	-	-	rs71951358		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:12697428delG								SNX29 (29283 upstream) : CPPED1 (56229 downstream)																							CAGAGCAAGAGGTTTGGGTAG	0.542													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	25620557	25620558	+	IGR	INS	-	TTG	TTG	rs147943037	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:25620557_25620558insTTG								ZKSCAN2 (351702 upstream) : HS3ST4 (82789 downstream)																							gcctggctaacttgttgttgtt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	26361894	26361894	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:26361894delA								HS3ST4 (212886 upstream) : C16orf82 (716325 downstream)																							TCCCTTCACTAAGCTTCCAAG	0.468													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	32399155	32399155	+	IGR	DEL	C	-	-	rs149453033		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:32399155delC								HERC2P4 (235281 upstream) : TP53TG3B (285686 downstream)																							tgtgatccagcccacctcagc	0.040													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	32534235	32534235	+	IGR	DEL	A	-	-	rs113189996		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:32534235delA								HERC2P4 (370361 upstream) : TP53TG3B (150606 downstream)																							ctgctgaatcaaaaaaaagtt	0.000													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	32559919	32559920	+	IGR	INS	-	TT	TT	rs151318257		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:32559919_32559920insTT								HERC2P4 (396045 upstream) : TP53TG3B (124921 downstream)																							cagaaataaacttttttttatt	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	32818494	32818496	+	IGR	DEL	TCA	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:32818494_32818496delTCA								TP53TG3B (129616 upstream) : SLC6A10P (70301 downstream)																							ttcatttatttcatcatttcatc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	32823261	32823261	+	IGR	DEL	T	-	-	rs112134849		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:32823261delT								TP53TG3B (134383 upstream) : SLC6A10P (65536 downstream)																							GGCGGGTGGGTGGCAGAAAGC	0.542													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	33881799	33881800	+	IGR	INS	-	T	T	rs76406357		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:33881799_33881800insT								SLC6A10P (985336 upstream) : MIR1826 (83708 downstream)																							atggaatcgaaggaatcatcga	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	33900568	33900572	+	IGR	DEL	TCATT	-	-	rs147007432		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:33900568_33900572delTCATT								None (None upstream) : MIR1826 (64936 downstream)																							cccattccagtcatttccactccac	0.000													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	33952378	33952379	+	IGR	INS	-	G	G			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:33952378_33952379insG								None (None upstream) : MIR1826 (13129 downstream)																							TTAGGGGGTGTGGTGGGGCTGG	0.589													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	33957996	33957997	+	IGR	INS	-	TG	TG	rs151338913		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:33957996_33957997insTG								None (None upstream) : MIR1826 (7511 downstream)																							ctctgccggtctctctctctct	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	34004863	34004864	+	IGR	DEL	AC	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:34004863_34004864delAC								MIR1826 (39271 upstream) : UBE2MP1 (398938 downstream)																							caatcaaaagacaggttcaact	0.000													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	51115513	51115513	+	IGR	DEL	C	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:51115513delC								CYLD (279667 upstream) : SALL1 (54373 downstream)																							cacctgacagcccactgtgat	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	51984044	51984044	+	IGR	DEL	C	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:51984044delC								SALL1 (798861 upstream) : TOX3 (487874 downstream)																							CCAAAACACACCCCACAGTTA	0.428													4	2	---	---	---	---	
CNOT1	23019	broad.mit.edu	37	16	58566743	58566746	+	Intron	DEL	ACTG	-	-	rs138741571		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:58566743_58566746delACTG	uc002env.2	-						CNOT1_uc002enw.2_Intron|CNOT1_uc002enu.3_Intron|CNOT1_uc002ent.2_5'UTR|CNOT1_uc010vik.1_Intron	NM_016284	NP_057368	A5YKK6	CNOT1_HUMAN	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)		TGACTTGCCCACTGAACAGTGAGG	0.407													3	3	---	---	---	---	
CTCF	10664	broad.mit.edu	37	16	67667684	67667685	+	Intron	INS	-	AC	AC	rs147799138	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:67667684_67667685insAC	uc002etl.2	+						CTCF_uc010cek.2_Intron|CTCF_uc002etm.1_Intron	NM_006565	NP_006556	P49711	CTCF_HUMAN	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)		CTTGTCCCCTGacacacacaca	0.223													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	73158711	73158711	+	IGR	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:73158711delG								HTA (31041 upstream) : None (None downstream)																							cagagcaggtggggtcaagag	0.000													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	74326560	74326560	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:74326560delT								None (None upstream) : PSMD7 (4121 downstream)																							TCCATTTGCAttttttttttt	0.144													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	82301313	82301315	+	IGR	DEL	CTT	-	-	rs59195622		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:82301313_82301315delCTT								MPHOSPH6 (97484 upstream) : CDH13 (359263 downstream)																							tctccttctccttcttctccttc	0.039													4	2	---	---	---	---	
COTL1	23406	broad.mit.edu	37	16	84600696	84600699	+	Intron	DEL	AGTC	-	-	rs113268973		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:84600696_84600699delAGTC	uc002fid.2	-						COTL1_uc002fie.2_Intron|COTL1_uc010chk.2_Intron|COTL1_uc002fif.1_RNA	NM_021149	NP_066972	Q14019	COTL1_HUMAN	coactosin-like 1							cytoplasm|cytoskeleton	actin binding|enzyme binding			skin(1)	1						TCAGCAGCAGAGTCAGTCAATGGA	0.490													4	3	---	---	---	---	
C16orf74	404550	broad.mit.edu	37	16	85754169	85754169	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:85754169delT	uc002fjc.3	-							NM_206967	NP_996850	Q96GX8	CP074_HUMAN	MGC17624 protein												0						agcccagcaattctgttcaag	0.065													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	87221075	87221076	+	Intron	INS	-	TG	TG	rs140058169	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:87221075_87221076insTG	uc002fjt.1	-											Homo sapiens cDNA FLJ43761 fis, clone TESTI2048109.																		tgtaggtgtaatgtgtgtgggt	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	16	87631393	87631395	+	IGR	DEL	CAT	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr16:87631393_87631395delCAT								ZCCHC14 (105933 upstream) : JPH3 (4046 downstream)																							ccattattaccatcatcaccatc	0.000													4	2	---	---	---	---	
GPR172B	55065	broad.mit.edu	37	17	4950766	4950767	+	Intron	INS	-	GGGTGT	GGGTGT	rs71149506		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:4950766_4950767insGGGTGT	uc010ckx.2	-									Q9NWF4	RFT_HUMAN	SubName: Full=cDNA FLJ41572 fis, clone CTONG2009725, highly similar to Porcine endogenous retrovirus A receptor 2;							integral to plasma membrane	receptor activity|riboflavin transporter activity				0						ATTGATGTGGGgtgtgtgtgtg	0.158													2	5	---	---	---	---	
RABEP1	9135	broad.mit.edu	37	17	5241658	5241660	+	Intron	DEL	ACC	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:5241658_5241660delACC	uc002gbm.3	+						RABEP1_uc010clc.1_Intron|RABEP1_uc010cld.1_Intron|RABEP1_uc010vsw.1_Intron|RABEP1_uc002gbl.3_Intron	NM_004703	NP_004694	Q15276	RABE1_HUMAN	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						ggagttggagaccagtctgacca	0.015													2	5	---	---	---	---	
TP53	7157	broad.mit.edu	37	17	7578200	7578221	+	Frame_Shift_Del	DEL	CCACACTATGTCGAAAAGTGTT	-	-	rs35163653	byFrequency	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:7578200_7578221delCCACACTATGTCGAAAAGTGTT	uc002gim.2	-	6	822_843	c.628_649delAACACTTTTCGACATAGTGTGG	c.(628-651)AACACTTTTCGACATAGTGTGGTGfs	p.N210fs	TP53_uc002gig.1_Frame_Shift_Del_p.N210fs|TP53_uc002gih.2_Frame_Shift_Del_p.N210fs|TP53_uc010cne.1_5'Flank|TP53_uc010cnf.1_Frame_Shift_Del_p.N78fs|TP53_uc010cng.1_Frame_Shift_Del_p.N78fs|TP53_uc002gii.1_Frame_Shift_Del_p.N78fs|TP53_uc010cnh.1_Frame_Shift_Del_p.N210fs|TP53_uc010cni.1_Frame_Shift_Del_p.N210fs|TP53_uc002gij.2_Frame_Shift_Del_p.N210fs|TP53_uc010cnj.1_Intron|TP53_uc002gin.2_Frame_Shift_Del_p.N117fs|TP53_uc002gio.2_Frame_Shift_Del_p.N78fs|TP53_uc010vug.1_Frame_Shift_Del_p.N171fs	NM_001126112	NP_001119584	P04637	P53_HUMAN	tumor protein p53 isoform a	210_217	Required for interaction with FBXO42.||Interaction with HIPK1 (By similarity).|Interaction with AXIN1 (By similarity).		V -> I (in a sporadic cancer; somatic mutation).|V -> A (in sporadic cancers; somatic mutation).|V -> E (in sporadic cancers; somatic mutation).|V -> L (in sporadic cancers; somatic mutation).|V -> G (in sporadic cancers; somatic mutation).		activation of caspase activity by cytochrome c|base-excision repair|blood coagulation|cell cycle arrest|cell differentiation|cell proliferation|cellular protein localization|cellular response to drug|cellular response to glucose starvation|cellular response to hypoxia|cellular response to ionizing radiation|cellular response to UV|determination of adult lifespan|DNA damage response, signal transduction by p53 class mediator resulting in cell cycle arrest|DNA damage response, signal transduction by p53 class mediator resulting in induction of apoptosis|DNA damage response, signal transduction by p53 class mediator resulting in transcription of p21 class mediator|ER overload response|interspecies interaction between organisms|negative regulation of apoptosis|negative regulation of cell growth|negative regulation of cell proliferation|negative regulation of helicase activity|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|nucleotide-excision repair|oxidative stress-induced premature senescence|positive regulation of histone deacetylation|positive regulation of neuron apoptosis|positive regulation of peptidyl-tyrosine phosphorylation|positive regulation of reactive oxygen species metabolic process|positive regulation of thymocyte apoptosis|positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|protein localization|protein tetramerization|Ras protein signal transduction|regulation of mitochondrial membrane permeability|replicative senescence|response to antibiotic|response to gamma radiation|response to X-ray	cytoplasm|cytosol|endoplasmic reticulum|insoluble fraction|mitochondrion|nuclear chromatin|nuclear matrix|nucleolus|nucleus|PML body|protein complex|replication fork	ATP binding|chaperone binding|chromatin binding|copper ion binding|damaged DNA binding|DNA strand annealing activity|histone acetyltransferase binding|p53 binding|protease binding|protein binding|protein heterodimerization activity|protein kinase binding|protein N-terminus binding|protein phosphatase 2A binding|RNA polymerase II transcription factor binding|sequence-specific DNA binding transcription factor activity|transcription regulatory region DNA binding|transcription regulatory region DNA binding|transcription repressor activity|ubiquitin protein ligase binding|zinc ion binding	p.R213*(186)|p.V216M(49)|p.H214R(45)|p.R213L(25)|p.R213Q(22)|p.S215R(16)|p.S215I(15)|p.R213fs*34(10)|p.T211T(9)|p.V216del(8)|p.V216L(7)|p.T211I(7)|p.F212fs*3(7)|p.0?(7)|p.S215G(6)|p.S215N(6)|p.S215C(5)|p.R213P(5)|p.S215fs*32(4)|p.V216E(4)|p.T211N(4)|p.H214Y(4)|p.H214Q(4)|p.N210fs*37(4)|p.V216A(3)|p.V216G(3)|p.H214D(3)|p.S215T(3)|p.T211fs*4(3)|p.F212L(3)|p.T211fs*36(2)|p.S215S(2)|p.N210S(2)|p.H214fs*5(2)|p.R209fs*35(2)|p.V216fs*6(2)|p.R120*(2)|p.T211A(2)|p.T211fs*5(2)|p.V216fs*31(2)|p.V217L(2)|p.R81*(2)|p.F212S(2)|p.H214fs*33(2)|p.F212I(2)|p.R213G(2)|p.V217fs*33(1)|p.S215fs*27(1)|p.S215fs*29(1)|p.D207_R213delDDRNTFR(1)|p.V217fs*5(1)|p.N210D(1)|p.N210N(1)|p.S215fs*31(1)|p.N210H(1)|p.N210K(1)|p.N210T(1)|p.D207_V216del10(1)|p.T211fs*28(1)|p.H214fs*7(1)|p.R213fs*32(1)|p.?fs(1)|p.D208_V216delDRNTFRHSV(1)|p.R209fs*36(1)|p.V216fs*5(1)|p.V216_Y220delVVVPY(1)|p.D208fs*1(1)|p.V217del(1)|p.R213fs*2(1)|p.T211P(1)|p.T211S(1)|p.K164_P219del(1)|p.H214H(1)|p.F212fs*4(1)|p.R209_R213delRNTFR(1)|p.S215_V216insX(1)|p.R213_S215>X(1)|p.V216fs*28(1)|p.V216fs*32(1)|p.V216fs*33(1)|p.S215del(1)|p.H214_S215insX(1)|p.T211_F212insX(1)|p.T211_S215delTFRHS(1)|p.E204_N210delEYLDDRN(1)|p.?(1)|p.N210fs*7(1)|p.R213>L(1)|p.F212Y(1)|p.S215_V218>R(1)|p.R213W(1)|p.R213R(1)|p.R209fs*6(1)|p.R209fs*5(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)		TAGGGCACCACCACACTATGTCGAAAAGTGTTTCTGTCATCC	0.545		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)			12	6	---	---	---	---	
USP43	124739	broad.mit.edu	37	17	9606495	9606495	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:9606495delT	uc010cod.2	+						USP43_uc002gma.3_Intron|USP43_uc010vva.1_Intron|USP43_uc010coe.2_Intron|USP43_uc002gmc.3_Intron	NM_153210	NP_694942	Q70EL4	UBP43_HUMAN	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						GTTACTCAGATTTTTTTTTTT	0.458													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	12395389	12395390	+	IGR	INS	-	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:12395389_12395390insA								MAP2K4 (348339 upstream) : MYOCD (173817 downstream)																							gaaaggaaaagaaaaaaaaaaa	0.000													5	3	---	---	---	---	
MAP2K3	5606	broad.mit.edu	37	17	21217018	21217020	+	Intron	DEL	CCT	-	-	rs72412380		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21217018_21217020delCCT	uc002gys.2	+						MAP2K3_uc002gyt.2_Intron|MAP2K3_uc002gyu.2_Intron	NM_145109	NP_659731	P46734	MP2K3_HUMAN	mitogen-activated protein kinase kinase 3						activation of MAPK activity|innate immune response|MyD88-dependent toll-like receptor signaling pathway|MyD88-independent toll-like receptor signaling pathway|positive regulation of transcription, DNA-dependent|stress-activated MAPK cascade|Toll signaling pathway|toll-like receptor 1 signaling pathway|toll-like receptor 2 signaling pathway|toll-like receptor 3 signaling pathway|toll-like receptor 4 signaling pathway	cytosol|nucleoplasm	ATP binding|MAP kinase kinase activity|protein binding|protein serine/threonine kinase activity|protein tyrosine kinase activity				0				COAD - Colon adenocarcinoma(3;0.0131)|Colorectal(15;0.0553)		TACCTGGCTCCCTCCTCCCTCCT	0.389													6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	21250019	21250028	+	IGR	DEL	CCTTAGGCCC	-	-	rs67030450		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21250019_21250028delCCTTAGGCCC								MAP2K3 (31470 upstream) : KCNJ12 (29671 downstream)																							tgggatttaaccttaggccccctcccccca	0.324													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	21518648	21518649	+	IGR	INS	-	A	A	rs148316050		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21518648_21518649insA								C17orf51 (40917 upstream) : FAM27L (306721 downstream)																							cgcaaaaattcaaaaattgcaa	0.109													4	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	21531402	21531402	+	IGR	DEL	T	-	-	rs75040995		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21531402delT								C17orf51 (53671 upstream) : FAM27L (293968 downstream)																							gacttttttgttttttttttt	0.139													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	21541903	21541904	+	IGR	INS	-	G	G	rs146783355		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:21541903_21541904insG								C17orf51 (64172 upstream) : FAM27L (283466 downstream)																							ttagtagagatgggttttacca	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	25272419	25272419	+	IGR	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:25272419delG								None (None upstream) : WSB1 (348687 downstream)																							ttggatcacagggaaaaaaaa	0.000													7	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	25285874	25285875	+	IGR	INS	-	CTCCTT	CTCCTT	rs73984730	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:25285874_25285875insCTCCTT								None (None upstream) : WSB1 (335231 downstream)																							tccccctcctctttacttttca	0.040													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	25286286	25286287	+	IGR	INS	-	A	A	rs142103642	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:25286286_25286287insA								None (None upstream) : WSB1 (334819 downstream)																							taatatttGTGAAAGAATGTAT	0.238													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	25287370	25287370	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:25287370delT								None (None upstream) : WSB1 (333736 downstream)																							CTAAATGCTATTTTTTTTAAA	0.308													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	25315539	25315539	+	IGR	DEL	G	-	-	rs140797522		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:25315539delG								None (None upstream) : WSB1 (305567 downstream)																							gggaggcagagggagatttta	0.000													4	2	---	---	---	---	
SARM1	23098	broad.mit.edu	37	17	26686181	26686182	+	Intron	INS	-	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:26686181_26686182insA	uc010wah.1	+						POLDIP2_uc002haz.2_5'Flank|POLDIP2_uc010wag.1_5'Flank|TMEM199_uc002hba.2_Intron	NM_152464	NP_689677	Q6SZW1	SARM1_HUMAN	transmembrane protein 199						innate immune response	cytoplasm|intrinsic to membrane	binding|transmembrane receptor activity				0	all_lung(13;0.000533)|Lung NSC(42;0.00171)			UCEC - Uterine corpus endometrioid carcinoma (53;0.154)		AAATTGAGATCAAAAAAAAAAA	0.381													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	32767949	32767950	+	IGR	INS	-	ACACAC	ACACAC	rs138852552	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:32767949_32767950insACACAC								CCL1 (77697 upstream) : C17orf102 (133192 downstream)																							cacacacacaaacacacacaca	0.272													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	34336205	34336205	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:34336205delT								CCL14-CCL15 (7105 upstream) : CCL23 (3892 downstream)																							cttcccctccttttcccctcc	0.000													4	2	---	---	---	---	
SYNRG	11276	broad.mit.edu	37	17	35910799	35910800	+	Intron	INS	-	A	A	rs66464579		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:35910799_35910800insA	uc002hoa.2	-						SYNRG_uc010wde.1_Intron|SYNRG_uc010wdf.1_Intron|SYNRG_uc002hoc.2_Intron|SYNRG_uc002hoe.2_Intron|SYNRG_uc002hod.2_Intron|SYNRG_uc010wdg.1_Intron|SYNRG_uc002hob.2_Intron|SYNRG_uc002hof.2_Intron	NM_007247	NP_009178	Q9UMZ2	SYNRG_HUMAN	synergin, gamma isoform 1						endocytosis|intracellular protein transport	AP-1 adaptor complex	calcium ion binding			ovary(2)	2						GAAAAGCAGCCAAAAAAAAAAA	0.322													4	2	---	---	---	---	
SRCIN1	80725	broad.mit.edu	37	17	36726867	36726868	+	Intron	INS	-	G	G	rs138662730	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:36726867_36726868insG	uc002hqd.2	-						SRCIN1_uc002hqe.2_Intron|SRCIN1_uc002hqh.1_Intron	NM_025248	NP_079524	Q9C0H9	SRCN1_HUMAN	SNAP25-interacting protein						exocytosis|negative regulation of protein tyrosine kinase activity|positive regulation of protein tyrosine kinase activity|regulation of cell migration|regulation of dendritic spine morphogenesis|substrate adhesion-dependent cell spreading	actin cytoskeleton|axon|cell junction|cytoplasm|dendrite|postsynaptic density|postsynaptic membrane	protein kinase binding				0						CATCAGACTCAGGTACCTTGTT	0.550													4	3	---	---	---	---	
JUP	3728	broad.mit.edu	37	17	39821340	39821341	+	Intron	INS	-	T	T	rs142464534	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:39821340_39821341insT	uc010wfs.1	-							NM_021991	NP_068831	P14923	PLAK_HUMAN	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)		tcttcactttattTTTTTTTTC	0.257													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	40229550	40229550	+	IGR	DEL	C	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:40229550delC								NKIRAS2 (51896 upstream) : DHX58 (23872 downstream)																							TGGGGCCTTTCCCAAATGTTC	0.209													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	49212325	49212329	+	IGR	DEL	ATGTG	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:49212325_49212329delATGTG								SPAG9 (14099 upstream) : NME1 (18591 downstream)																							tattcaataaatgtgatgtgatttc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	53268609	53268609	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:53268609delA								STXBP4 (27160 upstream) : HLF (73712 downstream)																							TTACTGATCTAATACCCCAGG	0.065													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	54798331	54798331	+	IGR	DEL	C	-	-	rs66495983		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:54798331delC								NOG (125380 upstream) : C17orf67 (70944 downstream)																							GAGGTAGAGGCCCCCCggtat	0.303													2	4	---	---	---	---	
TEX14	56155	broad.mit.edu	37	17	56677118	56677118	+	Intron	DEL	A	-	-	rs111881602		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:56677118delA	uc010dcz.1	-						TEX14_uc002iwr.1_Intron|TEX14_uc002iws.1_Intron|TEX14_uc010dda.1_Intron	NM_198393	NP_938207	Q8IWB6	TEX14_HUMAN	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)					AAAGACTGTCAAAAAAAAAAA	0.413													7	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	58187432	58187432	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:58187432delT								LOC653653 (7152 upstream) : CA4 (39870 downstream)																							ttgttttgcctttttttttta	0.020													4	2	---	---	---	---	
CSH2	1443	broad.mit.edu	37	17	61963114	61963115	+	Intron	INS	-	G	G	rs142738009	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:61963114_61963115insG	uc002jck.2	-							NM_001317	NP_001308	P01243	CSH_HUMAN	chorionic somatomammotropin hormone 1 isoform 1						female pregnancy|signal transduction	extracellular region	hormone activity|metal ion binding				0						CAGGGGGTGAAGTAGGGAGGGA	0.569													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	63275647	63275648	+	IGR	INS	-	AA	AA			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:63275647_63275648insAA								RGS9 (51828 upstream) : AXIN2 (249037 downstream)																							cactgtctcagaaaaaaaaaaa	0.218													3	3	---	---	---	---	
HELZ	9931	broad.mit.edu	37	17	65148883	65148884	+	Intron	INS	-	AA	AA			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:65148883_65148884insAA	uc010wqk.1	-						HELZ_uc002jfv.3_Intron|HELZ_uc002jfx.3_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)					agagtagatttaaaaaaaaaaa	0.000													4	2	---	---	---	---	
HRNBP3	146713	broad.mit.edu	37	17	77240778	77240779	+	Intron	INS	-	CCTTCCCTTCTC	CCTTCCCTTCTC	rs140890605	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:77240778_77240779insCCTTCCCTTCTC	uc010dhs.2	-						HRNBP3_uc010wua.1_Intron	NM_001082575	NP_001076044	A6NFN3	RFOX3_HUMAN	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)			CCCTCCTAGAGccttcccttcc	0.257													3	3	---	---	---	---	
CBX4	8535	broad.mit.edu	37	17	77811734	77811734	+	Intron	DEL	A	-	-	rs112421871		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:77811734delA	uc002jxe.2	-							NM_003655	NP_003646	O00257	CBX4_HUMAN	chromobox homolog 4						anti-apoptosis|chromatin modification|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	Golgi apparatus|PcG protein complex	enzyme binding|transcription corepressor activity			skin(2)	2			OV - Ovarian serous cystadenocarcinoma(97;0.0102)|BRCA - Breast invasive adenocarcinoma(99;0.0224)			GACACGGTGTAAAAAAAAAAA	0.517													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	17	78128323	78128323	+	IGR	DEL	T	-	-	rs112260276		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr17:78128323delT								EIF4A3 (7385 upstream) : CARD14 (15510 downstream)																							aaaagatagcttttttttttt	0.000													3	3	---	---	---	---	
DLGAP1	9229	broad.mit.edu	37	18	3742949	3742950	+	Intron	INS	-	CTTC	CTTC	rs143048862	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:3742949_3742950insCTTC	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|DLGAP1_uc002kmk.2_Intron	NM_004746	NP_004737	O14490	DLGP1_HUMAN	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)				TATCAATTTATcttccttcctt	0.223													4	2	---	---	---	---	
EPB41L3	23136	broad.mit.edu	37	18	5579334	5579334	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:5579334delT	uc010dkq.1	-						EPB41L3_uc010dks.1_5'Flank|EPB41L3_uc002kmv.1_Intron	NM_012307	NP_036439	Q9Y2J2	E41L3_HUMAN	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						ATGAAGGTTATCGTCGAAATC	0.393													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	5826474	5826475	+	IGR	INS	-	GTGTGTGT	GTGTGTGT	rs141059184	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:5826474_5826475insGTGTGTGT								EPB41L3 (195832 upstream) : TMEM200C (63709 downstream)																							ATGGTAAATGAGTGTGTGTGTG	0.376													4	2	---	---	---	---	
RNMT	8731	broad.mit.edu	37	18	13744611	13744611	+	Intron	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:13744611delG	uc002ksk.1	+						RNMT_uc002ksl.1_Intron|RNMT_uc002ksm.1_Intron|RNMT_uc010dlk.2_Intron|RNMT_uc010xae.1_Intron	NM_003799	NP_003790	O43148	MCES_HUMAN	RNA (guanine-7-) methyltransferase						mRNA capping|transcription from RNA polymerase II promoter|viral reproduction	nucleoplasm	mRNA (guanine-N7-)-methyltransferase activity|RNA binding				0						TGAACTGCCTGGAATAAAAGA	0.323													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	15208048	15208049	+	IGR	INS	-	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:15208048_15208049insT								ANKRD30B (355311 upstream) : LOC644669 (105506 downstream)																							CTTTTCCTTTCTTTTCTTTCTT	0.050													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	15391943	15391944	+	IGR	INS	-	A	A	rs142303446		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:15391943_15391944insA								LOC644669 (66025 upstream) : None (None downstream)																							cgcatatctacaactatcagat	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	15409039	15409039	+	IGR	DEL	A	-	-	rs144372703		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:15409039delA								LOC644669 (83121 upstream) : None (None downstream)																							tagacagaacaattctgagaa	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	20076425	20076425	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:20076425delT								CTAGE1 (78547 upstream) : RBBP8 (436870 downstream)																							atacacattcttttcaagtcc	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	38482729	38482730	+	IGR	DEL	CA	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:38482729_38482730delCA								None (None upstream) : KC6 (577508 downstream)																							AGCAGATGTGCACACACACACA	0.460													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	39365217	39365217	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:39365217delA								KC6 (264656 upstream) : PIK3C3 (169982 downstream)																							AGTACTCCCTAAACCACTTTG	0.264													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	47960798	47960798	+	IGR	DEL	C	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:47960798delC								SKA1 (40264 upstream) : MAPK4 (125686 downstream)																							aagactcattcccgggtggca	0.199													4	2	---	---	---	---	
MAPK4	5596	broad.mit.edu	37	18	48201687	48201687	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:48201687delT	uc002lev.2	+						MAPK4_uc010xdm.1_Intron|MAPK4_uc010doz.2_Intron	NM_002747	NP_002738	P31152	MK04_HUMAN	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)		tggcaaaccattttttttttt	0.000													3	3	---	---	---	---	
LMAN1	3998	broad.mit.edu	37	18	57000584	57000584	+	Intron	DEL	A	-	-	rs76213902		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:57000584delA	uc002lhz.2	-							NM_005570	NP_005561	P49257	LMAN1_HUMAN	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)	TACATCATTTAAAAAAAAAAA	0.234													4	2	---	---	---	---	
CCBE1	147372	broad.mit.edu	37	18	57108587	57108588	+	Intron	INS	-	A	A	rs149692947	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:57108587_57108588insA	uc002lib.2	-						CCBE1_uc010dpq.2_Intron|CCBE1_uc002lia.2_Intron	NM_133459	NP_597716	Q6UXH8	CCBE1_HUMAN	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)				actaaaaatacaaaaattagtc	0.000													3	4	---	---	---	---	
CCBE1	147372	broad.mit.edu	37	18	57209108	57209109	+	Intron	INS	-	A	A	rs147496616		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:57209108_57209109insA	uc002lib.2	-							NM_133459	NP_597716	Q6UXH8	CCBE1_HUMAN	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)				tctgcttaattaaaaaaaaaaa	0.000													3	3	---	---	---	---	
BCL2	596	broad.mit.edu	37	18	60895077	60895077	+	Intron	DEL	C	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:60895077delC	uc002lit.1	-						BCL2_uc002liu.1_Intron	NM_000633	NP_000624	P10415	BCL2_HUMAN	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)	gaaagcaataccatagggaaA	0.060			T	IGH@	NHL|CLL								4	2	---	---	---	---	
CCDC102B	79839	broad.mit.edu	37	18	66503898	66503900	+	Intron	DEL	AAA	-	-	rs140287589		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:66503898_66503900delAAA	uc002lkk.2	+						CCDC102B_uc002lki.2_Intron|CCDC102B_uc002lkj.1_Intron	NM_001093729	NP_001087198	Q68D86	C102B_HUMAN	coiled-coil domain containing 102B											ovary(1)|lung(1)|skin(1)	3		Esophageal squamous(42;0.0559)|Colorectal(73;0.0604)				ATCAATTTTCAAAAAAAAAAAAA	0.167													6	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	71536046	71536046	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:71536046delA								None (None upstream) : FBXO15 (204542 downstream)																							ACCTTAGTATAACTGGGGGCA	0.338													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	18	73073876	73073879	+	IGR	DEL	GTAA	-	-	rs148893542		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:73073876_73073879delGTAA								TSHZ1 (71976 upstream) : C18orf62 (47948 downstream)																							agtgtgtctggtaagtgagtgtga	0.132													1	6	---	---	---	---	
TXNL4A	10907	broad.mit.edu	37	18	77761139	77761140	+	Intron	INS	-	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr18:77761139_77761140insA	uc010drg.2	-							NM_006701	NP_006692	P83876	TXN4A_HUMAN	thioredoxin-like 4A						cell division|mitosis|spliceosome assembly	nucleoplasm|spliceosomal complex	protein binding				0		all_cancers(4;1.15e-12)|all_epithelial(4;8.61e-09)|all_lung(4;0.00366)|Lung NSC(4;0.00683)|Esophageal squamous(42;0.0212)|Ovarian(4;0.0646)|Melanoma(33;0.2)		OV - Ovarian serous cystadenocarcinoma(15;7.36e-07)|BRCA - Breast invasive adenocarcinoma(31;0.0249)		tagcaatggctaaaaggggcca	0.000													4	2	---	---	---	---	
MED16	10025	broad.mit.edu	37	19	878917	878928	+	Intron	DEL	GCCCCGGCCCCG	-	-	rs72321813		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:878917_878928delGCCCCGGCCCCG	uc002lqd.1	-						MED16_uc010drw.1_Intron|MED16_uc002lqe.2_Intron|MED16_uc002lqf.2_Intron|MED16_uc010xfv.1_Intron|MED16_uc010xfw.1_Intron|MED16_uc010xfx.1_Intron|MED16_uc010xfy.1_Intron	NM_005481	NP_005472	Q9Y2X0	MED16_HUMAN	mediator complex subunit 16						androgen receptor signaling pathway|positive regulation of transcription, DNA-dependent|regulation of transcription from RNA polymerase II promoter|transcription initiation from RNA polymerase II promoter	mediator complex	receptor activity|thyroid hormone receptor binding|thyroid hormone receptor coactivator activity|vitamin D receptor binding				0		Acute lymphoblastic leukemia(61;2.53e-14)|all_hematologic(61;8.18e-10)|Lung NSC(49;6.59e-06)|all_lung(49;9.97e-06)|Breast(49;9.42e-05)|Hepatocellular(1079;0.137)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		ATGTCCAccagccccggccccggccccggccc	0.259													5	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	1672365	1672365	+	IGR	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:1672365delG								TCF3 (20039 upstream) : ONECUT3 (81297 downstream)																							TGCCTTCCCTGGGTCTTCTGG	0.667											OREG0025122	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	4	2	---	---	---	---	
CD70	970	broad.mit.edu	37	19	6587637	6587638	+	Intron	INS	-	T	T	rs138547923	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:6587637_6587638insT	uc002mfi.2	-						CD70_uc010xjf.1_Intron	NM_001252	NP_001243	P32970	CD70_HUMAN	tumor necrosis factor ligand superfamily, member						cell proliferation|cell-cell signaling|immune response|induction of apoptosis|signal transduction	extracellular space|integral to membrane of membrane fraction|integral to plasma membrane	cytokine activity|protease binding|tumor necrosis factor receptor binding				0						tcccaggaccctttttttttct	0.099													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	10586797	10586798	+	IGR	DEL	TT	-	-	rs36115296		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10586797_10586798delTT								PDE4A (6490 upstream) : KEAP1 (9998 downstream)																							tctttctttctttttctttctt	0.005													3	3	---	---	---	---	
AP1M2	10053	broad.mit.edu	37	19	10685628	10685628	+	Frame_Shift_Del	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:10685628delG	uc002mpc.2	-	10	1209	c.1125delC	c.(1123-1125)CCCfs	p.P375fs	AP1M2_uc002mpd.2_Frame_Shift_Del_p.P377fs	NM_005498	NP_005489	Q9Y6Q5	AP1M2_HUMAN	adaptor-related protein complex 1, mu 2 subunit	375	MHD.				cellular membrane organization|post-Golgi vesicle-mediated transport|protein targeting|regulation of defense response to virus by virus|vesicle targeting|viral reproduction	clathrin adaptor complex|clathrin coated vesicle membrane|cytosol|Golgi membrane|lysosomal membrane	protein binding			ovary(2)	2			Epithelial(33;1.58e-05)|all cancers(31;6.36e-05)			TGACCCCGATGGGGGGCCGGC	0.612													5	8	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	15923391	15923392	+	IGR	INS	-	GGAG	GGAG	rs147515045	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:15923391_15923392insGGAG								OR10H1 (4455 upstream) : UCA1 (16365 downstream)																							gaaggaagaaaggagggaggga	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	20441107	20441108	+	IGR	DEL	TC	-	-	rs12972528		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:20441107_20441108delTC								LOC284441 (70604 upstream) : ZNF826 (9970 downstream)																							AGATTTTAtttctttttttttt	0.144													9	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	27882590	27882590	+	IGR	DEL	A	-	-	rs111531532		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:27882590delA								None (None upstream) : LOC148189 (398812 downstream)																							atcttcacataaaaattagac	0.000													4	2	---	---	---	---	
ZNF793	390927	broad.mit.edu	37	19	38018860	38018860	+	Intron	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:38018860delA	uc010efm.2	+						ZNF793_uc010xts.1_Intron|ZNF793_uc010efo.2_Intron	NM_001013659	NP_001013681	Q6ZN11	ZN793_HUMAN	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)			gtctctactgaaaaaaaaaaa	0.000													4	2	---	---	---	---	
ZNF546	339327	broad.mit.edu	37	19	40519547	40519548	+	Intron	INS	-	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:40519547_40519548insT	uc002oms.2	+						ZNF546_uc002omt.2_Intron	NM_178544	NP_848639	Q86UE3	ZN546_HUMAN	zinc finger protein 546						regulation of transcription, DNA-dependent|transcription, DNA-dependent	nucleus	DNA binding|zinc ion binding			ovary(1)|breast(1)|skin(1)	3	all_cancers(60;9.55e-06)|all_lung(34;1.17e-07)|Lung NSC(34;1.41e-07)|Ovarian(47;0.0925)					TTACTCTTTGCttttttttttt	0.297													9	5	---	---	---	---	
LTBP4	8425	broad.mit.edu	37	19	41129078	41129079	+	Intron	DEL	TC	-	-	rs11376199		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:41129078_41129079delTC	uc002ooh.1	+						LTBP4_uc002oog.1_Intron|LTBP4_uc002ooi.1_Intron|LTBP4_uc002ooj.1_Intron|LTBP4_uc002ook.1_Intron|LTBP4_uc002ool.1_Intron|LTBP4_uc010xvp.1_Intron	NM_001042544	NP_001036009	Q8N2S1	LTBP4_HUMAN	latent transforming growth factor beta binding						growth hormone secretion|multicellular organismal development|protein folding|regulation of cell differentiation|regulation of cell growth|regulation of proteolysis|regulation of transforming growth factor beta receptor signaling pathway	extracellular space|proteinaceous extracellular matrix	calcium ion binding|glycosaminoglycan binding|integrin binding|transforming growth factor beta binding|transforming growth factor beta receptor activity			central_nervous_system(1)	1			Lung(22;0.000158)|LUSC - Lung squamous cell carcinoma(20;0.000384)			ttcttttctttctttttttttt	0.000													4	2	---	---	---	---	
CEACAM4	1089	broad.mit.edu	37	19	42131753	42131754	+	Intron	INS	-	C	C	rs145574063	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:42131753_42131754insC	uc002orh.1	-						CEACAM4_uc010xwd.1_Intron	NM_001817	NP_001808	O75871	CEAM4_HUMAN	carcinoembryonic antigen-related cell adhesion							integral to plasma membrane|membrane fraction					0						CCCTGCTGAGGCCCCCCCGCCC	0.594													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	19	44201065	44201067	+	IGR	DEL	TGT	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:44201065_44201067delTGT								PLAUR (26563 upstream) : IRGC (19147 downstream)																							GATTTTTAACTGttgttgttgtt	0.227													0	6	---	---	---	---	
FAM83E	54854	broad.mit.edu	37	19	49114047	49114047	+	Frame_Shift_Del	DEL	C	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:49114047delC	uc002pjn.2	-	2	588	c.523delG	c.(523-525)GATfs	p.D175fs		NM_017708	NP_060178	Q2M2I3	FA83E_HUMAN	hypothetical protein LOC54854	175										ovary(1)	1		all_epithelial(76;2.38e-06)|all_lung(116;4.89e-06)|Lung NSC(112;9.34e-06)|all_neural(266;0.0189)|Ovarian(192;0.0261)		OV - Ovarian serous cystadenocarcinoma(262;0.000102)|all cancers(93;0.000117)|GBM - Glioblastoma multiforme(486;0.00627)|Epithelial(262;0.0158)		GTGGCAGCATCCACCAAGTCC	0.652													2	4	---	---	---	---	
KLK6	5653	broad.mit.edu	37	19	51463048	51463049	+	Intron	INS	-	GAG	GAG			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:51463048_51463049insGAG	uc002pui.2	-						KLK6_uc010eoj.2_Intron|KLK6_uc002puh.2_Intron|KLK6_uc002puj.2_Intron|KLK6_uc010ycn.1_Intron|KLK6_uc002pul.2_Intron|KLK6_uc002pum.2_Intron	NM_001012964	NP_001012982	Q92876	KLK6_HUMAN	kallikrein-related peptidase 6 isoform A						amyloid precursor protein metabolic process|central nervous system development|collagen catabolic process|hormone metabolic process|myelination|positive regulation of G-protein coupled receptor protein signaling pathway|protein autoprocessing|proteolysis|regulation of cell differentiation|tissue regeneration	endoplasmic reticulum|extracellular region|microsome|mitochondrion|nucleolus	protein binding|serine-type endopeptidase activity				0		all_neural(266;0.026)		OV - Ovarian serous cystadenocarcinoma(262;0.00372)|GBM - Glioblastoma multiforme(134;0.00871)		gaagaggaggaggaagaggaga	0.000													4	2	---	---	---	---	
EPS8L1	54869	broad.mit.edu	37	19	55587180	55587185	+	5'Flank	DEL	GCGGAG	-	-	rs72402545		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr19:55587180_55587185delGCGGAG	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	Q8TE68	ES8L1_HUMAN	epidermal growth factor receptor pathway							cytoplasm					0			BRCA - Breast invasive adenocarcinoma(297;0.209)	GBM - Glioblastoma multiforme(193;0.044)		GCTCAGGTATGCGGAGGCGGAGGCGG	0.709													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	1857744	1857745	+	IGR	INS	-	C	C	rs146790559		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:1857744_1857745insC								SIRPG (219319 upstream) : SIRPA (17068 downstream)																							CCTGTGTCCATCCCCTGTATCC	0.550													4	3	---	---	---	---	
CRLS1	54675	broad.mit.edu	37	20	6019956	6019957	+	3'UTR	INS	-	T	T			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:6019956_6019957insT	uc002wmn.3	+	7					CRLS1_uc010gbq.2_RNA|CRLS1_uc010gbr.2_3'UTR	NM_019095	NP_061968	Q9UJA2	CRLS1_HUMAN	cardiolipin synthase 1 isoform 1						phospholipid biosynthetic process	integral to membrane|mitochondrial inner membrane	phosphotransferase activity, for other substituted phosphate groups				0						tgtgtATTTTGTTTTTTTTACA	0.099													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	12724324	12724324	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:12724324delA								BTBD3 (817082 upstream) : SPTLC3 (265303 downstream)																							TAGATATTTCACTCTACTAAT	0.239													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	12830200	12830200	+	IGR	DEL	A	-	-	rs66896011		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:12830200delA								BTBD3 (922958 upstream) : SPTLC3 (159427 downstream)																							TTGTTTTGTTAAAAAAAAAAA	0.353													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	12862763	12862764	+	IGR	INS	-	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:12862763_12862764insA								BTBD3 (955521 upstream) : SPTLC3 (126863 downstream)																							AGTTGTAATTTAaaaaaaaaaa	0.292													3	3	---	---	---	---	
C20orf26	26074	broad.mit.edu	37	20	20233186	20233187	+	Intron	INS	-	T	T	rs138313570	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:20233186_20233187insT	uc002wru.2	+						C20orf26_uc010zse.1_Intron|C20orf26_uc002wrw.2_Intron|C20orf26_uc002wrv.2_Intron	NM_015585	NP_056400	Q8NHU2	CT026_HUMAN	hypothetical protein LOC26074											ovary(3)|pancreas(1)	4				READ - Rectum adenocarcinoma(2;0.171)		aacattatgacttttttttttg	0.025													4	2	---	---	---	---	
FAM182B	728882	broad.mit.edu	37	20	25846196	25846199	+	Intron	DEL	TCTG	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:25846196_25846199delTCTG	uc002wvd.1	-						FAM182B_uc002wve.2_5'Flank					Homo sapiens cDNA FLJ30282 fis, clone BRACE2002803.												0						cttcgagatctctgacggcggcac	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	25863383	25863384	+	IGR	DEL	TG	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:25863383_25863384delTG								FAM182B (14597 upstream) : LOC100134868 (127051 downstream)																							CACCGATACATGTGTGAATATA	0.178													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	25901275	25901276	+	IGR	INS	-	AT	AT			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:25901275_25901276insAT								FAM182B (52489 upstream) : LOC100134868 (89159 downstream)																							CATGCACACACGTGTGTGCACA	0.223													3	3	---	---	---	---	
FAM182A	284800	broad.mit.edu	37	20	26057515	26057516	+	Intron	INS	-	A	A	rs140712465	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:26057515_26057516insA	uc010gdq.2	+							NR_026713				Homo sapiens cDNA FLJ38374 fis, clone FEBRA2002552.												0						agaaggagaacatttcttgatg	0.188													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	26074143	26074144	+	IGR	INS	-	TG	TG	rs62213638	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:26074143_26074144insTG								FAM182A (6591 upstream) : C20orf191 (9909 downstream)																							gtctggaaatcagtttagattg	0.025													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	26146969	26146969	+	IGR	DEL	G	-	-	rs77058092		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:26146969delG								C20orf191 (52292 upstream) : MIR663 (41853 downstream)																							AAGGAAATAAGAGCAGATGAA	0.348													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	26147215	26147215	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:26147215delT								C20orf191 (52538 upstream) : MIR663 (41607 downstream)																							AATTTTAATCTGTTTAGATTT	0.318													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	26201021	26201021	+	IGR	DEL	C	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:26201021delC								MIR663 (12107 upstream) : None (None downstream)																							CAGATTTTTTCCCATCAGATG	0.244													6	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	26210810	26210812	+	IGR	DEL	ACA	-	-	rs149589991		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:26210810_26210812delACA								MIR663 (21896 upstream) : None (None downstream)																							CTTCAAAATCACAACAACTTTAT	0.177													9	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	26212113	26212114	+	IGR	DEL	AA	-	-	rs72151337		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:26212113_26212114delAA								MIR663 (23199 upstream) : None (None downstream)																							taatatggataagtgtcaaaaa	0.000													2	8	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	29421009	29421009	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:29421009delA								None (None upstream) : FRG1B (190870 downstream)																							TATTCTGGAGAAATTCTCTTA	0.299													2	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	29589926	29589926	+	IGR	DEL	A	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:29589926delA								None (None upstream) : FRG1B (21953 downstream)																							tttctgatctaaatatagata	0.000													4	2	---	---	---	---	
FRG1B	284802	broad.mit.edu	37	20	29628775	29628778	+	Intron	DEL	TTTT	-	-	rs4010949		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:29628775_29628778delTTTT	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						TTTCCCTTTGTTTTTTTTTTTATA	0.328													5	5	---	---	---	---	
ITCH	83737	broad.mit.edu	37	20	32996019	32996020	+	Intron	INS	-	TAT	TAT	rs138547161	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:32996019_32996020insTAT	uc010geu.1	+						ITCH_uc002xak.2_Intron|ITCH_uc010zuj.1_Intron	NM_031483	NP_113671	Q96J02	ITCH_HUMAN	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						gtagctgggactggcacacgcc	0.015													2	4	---	---	---	---	
ACSS2	55902	broad.mit.edu	37	20	33508128	33508128	+	Intron	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:33508128delG	uc002xbd.2	+						ACSS2_uc002xbc.2_Intron|ACSS2_uc010zum.1_Intron|ACSS2_uc010gey.2_Intron|ACSS2_uc002xbe.2_Intron|ACSS2_uc002xbf.2_Intron	NM_018677	NP_061147	Q9NR19	ACSA_HUMAN	acyl-CoA synthetase short-chain family member 2						ethanol oxidation|lipid biosynthetic process|xenobiotic metabolic process	cytosol|nucleus	acetate-CoA ligase activity|ATP binding|protein binding				0					Adenosine monophosphate(DB00131)|Adenosine triphosphate(DB00171)	TATGAATGATGGCCTGATAGA	0.463													4	2	---	---	---	---	
TGIF2	60436	broad.mit.edu	37	20	35203434	35203434	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:35203434delT	uc002xfn.2	+						uc002xfk.3_5'Flank|C20orf24_uc002xfo.2_Intron	NM_021809	NP_068581	Q9GZN2	TGIF2_HUMAN	TGFB-induced factor homeobox 2							nucleus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity			pancreas(1)|skin(1)	2	Breast(12;0.114)	Myeloproliferative disorder(115;0.00878)				ACGCCTGGAGTTTTCCCTGTC	0.582													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	45366190	45366191	+	IGR	DEL	AT	-	-	rs145106246		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:45366190_45366191delAT								SLC2A10 (1207 upstream) : EYA2 (157072 downstream)																							gaaatgacacatgtcagtcact	0.257													1	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	45417700	45417701	+	IGR	INS	-	GT	GT	rs149314137		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:45417700_45417701insGT								SLC2A10 (52717 upstream) : EYA2 (105562 downstream)																							tgggtgtgcaggtgtgtttatt	0.000													3	3	---	---	---	---	
SULF2	55959	broad.mit.edu	37	20	46306174	46306175	+	Intron	DEL	GC	-	-	rs66927116		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:46306174_46306175delGC	uc002xto.2	-						SULF2_uc002xtr.2_Intron|SULF2_uc002xtq.2_Intron	NM_018837	NP_061325	Q8IWU5	SULF2_HUMAN	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						gtgtgtgtgtgCGCGCACACAC	0.475													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	47168243	47168244	+	IGR	INS	-	CACA	CACA			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:47168243_47168244insCACA								LOC284749 (168862 upstream) : PREX1 (72549 downstream)																							ACCCTGTCTCCcacacacacac	0.282													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	55132272	55132272	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:55132272delT								C20orf107 (20698 upstream) : TFAP2C (72086 downstream)																							ggaaagatggtttgagctcgg	0.000													4	2	---	---	---	---	
PHACTR3	116154	broad.mit.edu	37	20	58366650	58366650	+	Intron	DEL	T	-	-	rs66543362		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:58366650delT	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	Q96KR7	PHAR3_HUMAN	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)			TTCTTttttcttttttttttt	0.259													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	20	60958738	60958739	+	IGR	DEL	TG	-	-	rs72126973		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:60958738_60958739delTG								LAMA5 (16370 upstream) : RPS21 (3382 downstream)																							ccgcgtttcctgtgtgTGTCtg	0.010													7	6	---	---	---	---	
KCNQ2	3785	broad.mit.edu	37	20	62074452	62074453	+	Intron	INS	-	CAC	CAC	rs139636562	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr20:62074452_62074453insCAC	uc002yey.1	-						KCNQ2_uc002yez.1_Intron|KCNQ2_uc002yfa.1_Intron|KCNQ2_uc002yfb.1_Intron|KCNQ2_uc011aax.1_Intron|KCNQ2_uc002yfc.1_Intron	NM_172107	NP_742105	O43526	KCNQ2_HUMAN	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)	atcaccaccatcaccatcacca	0.000													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	9669532	9669532	+	IGR	DEL	C	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:9669532delC								None (None upstream) : None (None downstream)																							gattcacatactttgaggctc	0.000													4	3	---	---	---	---	
LOC100132288	100132288	broad.mit.edu	37	21	9917077	9917078	+	Intron	DEL	TA	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:9917077_9917078delTA	uc002zka.1	-							NM_001033515	NP_001028687			hypothetical protein LOC100132288												0						ATCAAAATtgtatatgtgtgtg	0.099													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	10731178	10731179	+	IGR	DEL	AA	-	-	rs146936303		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:10731178_10731179delAA								None (None upstream) : TPTE (175564 downstream)																							cagattctacaaaaaaagagag	0.000													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	10775702	10775703	+	IGR	INS	-	ATGGA	ATGGA	rs62219479		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:10775702_10775703insATGGA								None (None upstream) : TPTE (131040 downstream)																							aacggaaaggcatggaatggaa	0.000													4	2	---	---	---	---	
BAGE2	85319	broad.mit.edu	37	21	11067295	11067295	+	Intron	DEL	C	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:11067295delC	uc002yit.1	-						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)		ATATATATAGCAAAGTGAATT	0.234													4	2	---	---	---	---	
BAGE2	85319	broad.mit.edu	37	21	11072388	11072389	+	Intron	INS	-	T	T	rs140345115		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:11072388_11072389insT	uc002yit.1	-						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)		tggttcacgccgtgattccagc	0.000													16	10	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	14385850	14385850	+	IGR	DEL	T	-	-	rs57684097		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:14385850delT								None (None upstream) : C21orf99 (24637 downstream)																							tgatccatcctcctcagcctc	0.065													2	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	21492499	21492500	+	IGR	INS	-	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:21492499_21492500insA								None (None upstream) : C21orf131 (622414 downstream)																							CAACCTGTTCCAAATCCTCCTC	0.337													3	3	---	---	---	---	
RUNX1	861	broad.mit.edu	37	21	36226113	36226113	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:36226113delT	uc002yuh.2	-						RUNX1_uc002yui.2_Intron|RUNX1_uc010gmu.2_Intron|RUNX1_uc010gmv.2_Intron|RUNX1_uc002yuj.3_Intron|RUNX1_uc002yuk.3_Intron|RUNX1_uc002yum.1_Intron|RUNX1_uc010gmw.1_Intron|RUNX1_uc002yuo.1_Intron	NM_001001890	NP_001001890	Q01196	RUNX1_HUMAN	runt-related transcription factor 1 isoform						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						ccttccTTCAttttttttttt	0.139			T	RPL22|MDS1|EVI1|CBFA2T3|CBFA2T1|ETV6|LAF4	AML|preB- ALL|T-ALL				Platelet_disorder_associated_with_Myeloid_Malignancies				5	3	---	---	---	---	
PIGP	51227	broad.mit.edu	37	21	38439272	38439281	+	Intron	DEL	GTGTGTGTGT	-	-	rs112008084		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:38439272_38439281delGTGTGTGTGT	uc002yvw.1	-						PIGP_uc002yvy.1_Intron|PIGP_uc002yvx.1_Intron	NM_153681	NP_710148	P57054	PIGP_HUMAN	phosphatidylinositol glycan anchor biosynthesis,						C-terminal protein lipidation|preassembly of GPI anchor in ER membrane	endoplasmic reticulum membrane|glycosylphosphatidylinositol-N-acetylglucosaminyltransferase (GPI-GnT) complex|integral to membrane	phosphatidylinositol N-acetylglucosaminyltransferase activity				0		Myeloproliferative disorder(46;0.0412)				TTTACTGTCCgtgtgtgtgtgtgtgtgtgt	0.133													4	2	---	---	---	---	
NCRNA00111	54090	broad.mit.edu	37	21	43101998	43101998	+	Intron	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:43101998delT	uc011aes.1	+							NR_024367				Homo sapiens non-protein coding RNA 111 (NCRNA00111), non-coding RNA.												0						CTGTACCTCCTTCGCTGGCTC	0.562													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	21	47468741	47468741	+	IGR	DEL	C	-	-	rs150710143	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr21:47468741delC								COL6A1 (43778 upstream) : COL6A2 (49292 downstream)																							TATGAGGGATCTTTTTggggt	0.209													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	16423023	16423024	+	IGR	INS	-	TA	TA	rs71254085		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:16423023_16423024insTA								POTEH (135086 upstream) : OR11H1 (25802 downstream)																							atgtgtgtgtgtgtgtgtgtgt	0.297													4	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	16848518	16848520	+	IGR	DEL	CAA	-	-	rs143791622	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:16848518_16848520delCAA								OR11H1 (398714 upstream) : CCT8L2 (223128 downstream)																							atggaatcatcaacgaatggaat	0.000													4	2	---	---	---	---	
IL17RA	23765	broad.mit.edu	37	22	17577760	17577760	+	Intron	DEL	A	-	-	rs11301434		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:17577760delA	uc002zly.2	+						IL17RA_uc010gqt.2_Intron	NM_014339	NP_055154	Q96F46	I17RA_HUMAN	interleukin 17A receptor precursor						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)		actccatctcaaaaaaaaaaa	0.219													4	2	---	---	---	---	
TXNRD2	10587	broad.mit.edu	37	22	19923908	19923908	+	Intron	DEL	C	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:19923908delC	uc011ahc.1	-						TXNRD2_uc002zql.1_Intron|TXNRD2_uc002zqm.1_Intron|TXNRD2_uc002zqn.1_Intron|TXNRD2_uc002zqo.1_Intron|TXNRD2_uc002zqp.1_Intron|TXNRD2_uc002zqr.1_Intron|TXNRD2_uc010grv.1_Intron	NM_006440	NP_006431	Q9NNW7	TRXR2_HUMAN	thioredoxin reductase 2 precursor						cell redox homeostasis|response to oxygen radical	mitochondrion	flavin adenine dinucleotide binding|NADP binding|thioredoxin-disulfide reductase activity			ovary(2)	2	Colorectal(54;0.0993)					cttaacatcaccccctgatga	0.000													4	2	---	---	---	---	
PI4KA	5297	broad.mit.edu	37	22	21065232	21065233	+	Intron	INS	-	CT	CT			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:21065232_21065233insCT	uc002zsz.3	-						PI4KA_uc010gsp.2_Intron|PI4KA_uc002zsy.3_Intron	NM_058004	NP_477352	P42356	PI4KA_HUMAN	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)			GTGGAAAAGGACTGCAACAGGA	0.569													6	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	27409116	27409117	+	IGR	INS	-	TG	TG	rs140723973	by1000genomes	TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:27409116_27409117insTG								MIAT (294167 upstream) : MN1 (735149 downstream)																							gtatgagagactgtgcacagag	0.079													3	3	---	---	---	---	
ZNRF3	84133	broad.mit.edu	37	22	29283397	29283398	+	Intron	DEL	AG	-	-	rs9613733		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:29283397_29283398delAG	uc003aeg.2	+							NM_032173	NP_115549	Q9ULT6	ZNRF3_HUMAN	zinc and ring finger 3							integral to membrane	zinc ion binding			ovary(1)	1						TGTCAGTGTCAGAGAGAGAGAG	0.426													4	3	---	---	---	---	
ASCC2	84164	broad.mit.edu	37	22	30187695	30187696	+	Intron	DEL	AC	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:30187695_30187696delAC	uc003agr.2	-						ASCC2_uc003ags.2_Intron|ASCC2_uc003agt.2_Intron|ASCC2_uc011akr.1_Intron	NM_032204	NP_115580	Q9H1I8	ASCC2_HUMAN	activating signal cointegrator 1 complex subunit						regulation of transcription, DNA-dependent|transcription, DNA-dependent						0			OV - Ovarian serous cystadenocarcinoma(5;0.000103)|Epithelial(10;0.0169)|all cancers(5;0.0259)			caacaacaaAACACACACACAC	0.040													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	35957271	35957271	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:35957271delT								RASD2 (7228 upstream) : MB (45541 downstream)																							tttggttttgttttttttttt	0.000													5	3	---	---	---	---	
TRIOBP	11078	broad.mit.edu	37	22	38121560	38121564	+	Frame_Shift_Del	DEL	CTATG	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:38121560_38121564delCTATG	uc003atr.2	+	7	3268_3272	c.2997_3001delCTATG	c.(2995-3003)GCCTATGGGfs	p.A999fs	TRIOBP_uc003atu.2_Frame_Shift_Del_p.A827fs|TRIOBP_uc003atq.1_Frame_Shift_Del_p.A999fs|TRIOBP_uc003ats.1_Frame_Shift_Del_p.A827fs	NM_001039141	NP_001034230	Q9H2D6	TARA_HUMAN	TRIO and F-actin binding protein isoform 6	999_1001					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)					ACCCCGCTGCCTATGGGGCTCCCCT	0.644													76	44	---	---	---	---	
RANGAP1	5905	broad.mit.edu	37	22	41650127	41650127	+	Intron	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:41650127delG	uc003azs.2	-						RANGAP1_uc003azt.2_Intron|RANGAP1_uc003azu.2_Intron|RANGAP1_uc003azr.2_5'Flank|RANGAP1_uc010gyk.2_5'Flank|RANGAP1_uc011aoz.1_Intron	NM_002883	NP_002874	P46060	RAGP1_HUMAN	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						aaaaaaaaaagaaaTATAGGT	0.159													3	3	---	---	---	---	
MPPED1	758	broad.mit.edu	37	22	43871617	43871619	+	Intron	DEL	GTG	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:43871617_43871619delGTG	uc011apv.1	+						MPPED1_uc011apw.1_Intron|MPPED1_uc011apx.1_Intron|MPPED1_uc011apy.1_Intron|MPPED1_uc011apz.1_Intron	NM_001044370	NP_001037835	O15442	MPPD1_HUMAN	metallophosphoesterase domain containing 1								hydrolase activity				0		all_neural(38;0.0244)|Ovarian(80;0.0694)				gatgatggttgtggtggtggtgg	0.000													4	2	---	---	---	---	
PHF21B	112885	broad.mit.edu	37	22	45282568	45282569	+	Intron	INS	-	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:45282568_45282569insA	uc003bfn.2	-						PHF21B_uc003bfm.2_Intron|PHF21B_uc011aqk.1_Intron|PHF21B_uc011aql.1_Intron	NM_138415	NP_612424	Q96EK2	PF21B_HUMAN	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)		ccctgtctaccaaaaaaaaaaa	0.287													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	50296270	50296271	+	IGR	INS	-	GG	GG			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:50296270_50296271insGG								ZBED4 (12544 upstream) : ALG12 (585 downstream)																							gtgcactgtgtatgcatggtaa	0.020													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	22	51082667	51082670	+	IGR	DEL	CTTA	-	-	rs112487163		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chr22:51082667_51082670delCTTA								ARSA (16060 upstream) : SHANK3 (30400 downstream)																							ctgcactgatcttacttaggagca	0.029													3	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	1337190	1337190	+	IGR	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:1337190delG								CRLF2 (5660 upstream) : CSF2RA (50503 downstream)																							TGGAGGGGGAGGAAGGGCAGA	0.343													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	1690902	1690902	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:1690902delT								P2RY8 (34865 upstream) : SFRS17A (19584 downstream)																							ctgttgtttgttttttttttt	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	6587829	6587832	+	IGR	DEL	GGAT	-	-	rs111533413		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:6587829_6587832delGGAT								VCX3A (134670 upstream) : HDHD1A (379129 downstream)																							aaggatagaaggatggatggatgg	0.000													3	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	48305869	48305869	+	IGR	DEL	T	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:48305869delT								SSX4 (53084 upstream) : SLC38A5 (11059 downstream)																							ATAATACCCATTTTTTTTCTG	0.353													5	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	58544602	58544603	+	IGR	INS	-	C	C			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:58544602_58544603insC								ZXDA (607535 upstream) : None (None downstream)																							ttgaaacacttttttgtagaat	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	61723990	61723991	+	IGR	INS	-	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:61723990_61723991insA								None (None upstream) : SPIN4 (843117 downstream)																							gcttttaggtgagattatcccg	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	79828069	79828076	+	IGR	DEL	GCCAACCG	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:79828069_79828076delGCCAACCG								FAM46D (127259 upstream) : BRWD3 (103607 downstream)																							TGCTGCCCATGCCAACCGATGAGGCCAA	0.519													5	25	---	---	---	---	
Unknown	0	broad.mit.edu	37	X	88460997	88460998	+	IGR	DEL	TT	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrX:88460997_88460998delTT								CPXCR1 (451214 upstream) : TGIF2LX (715942 downstream)																							GGTGTATAACTTATAATCGCAG	0.337													4	2	---	---	---	---	
FAM197Y2	252946	broad.mit.edu	37	Y	9361177	9361178	+	Intron	INS	-	CACC	CACC			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:9361177_9361178insCACC	uc004fsd.1	-							NR_001553				Homo sapiens CYorf16 protein (CYorf16) mRNA, partial cds.												0						agacacacacacacacacacac	0.218													5	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	Y	9940191	9940191	+	IGR	DEL	C	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:9940191delC								TTTY22 (289337 upstream) : None (None downstream)																							CTGCCACCAACCCCAACAGCA	0.433													4	3	---	---	---	---	
Unknown	0	broad.mit.edu	37	Y	10011967	10011967	+	IGR	DEL	T	-	-	rs146357774		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:10011967delT								TTTY22 (361113 upstream) : None (None downstream)																							AAATGATGTATTGAGTGAATA	0.269													5	5	---	---	---	---	
Unknown	0	broad.mit.edu	37	Y	10019370	10019371	+	IGR	INS	-	CC	CC	rs147406097		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:10019370_10019371insCC								TTTY22 (368516 upstream) : None (None downstream)																							cacactgaacacccccgtcaga	0.015													7	4	---	---	---	---	
Unknown	0	broad.mit.edu	37	Y	10054250	10054250	+	IGR	DEL	G	-	-			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:10054250delG								TTTY22 (403396 upstream) : None (None downstream)																							caacaaaaaagaactagacag	0.000													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	Y	13538862	13538863	+	IGR	INS	-	A	A			TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:13538862_13538863insA								None (None upstream) : None (None downstream)																							aacaatacaccaaaatggggtt	0.089													4	2	---	---	---	---	
Unknown	0	broad.mit.edu	37	Y	58994226	58994226	+	IGR	DEL	C	-	-	rs149664455		TCGA-18-3409-01A-01D-0983-08	TCGA-18-3409-11A-01D-0983-08									Somatic	Phase_I	Capture				Illumina GAIIx	g.chrY:58994226delC								None (None upstream) : None (None downstream)																							ctaggatctgcctacagggtg	0.000													9	5	---	---	---	---	
