Hugo_Symbol	Entrez_Gene_Id	Center	NCBI_Build	Chromosome	Start_position	End_position	Strand	Variant_Classification	Variant_Type	Reference_Allele	Tumor_Seq_Allele1	Tumor_Seq_Allele2	dbSNP_RS	dbSNP_Val_Status	Tumor_Sample_Barcode	Matched_Norm_Sample_Barcode	Match_Norm_Seq_Allele1	Match_Norm_Seq_Allele2	Tumor_Validation_Allele1	Tumor_Validation_Allele2	Match_Norm_Validation_Allele1	Match_Norm_Validation_Allele2	Verification_Status	Validation_Status	Mutation_Status	Sequencing_Phase	Sequence_Source	Validation_Method	Score	BAM_file	Sequencer	Tumor_Sample_UUID	Matched_Norm_Sample_UUID	Genome_Change	Annotation_Transcript	Transcript_Strand	Transcript_Exon	Transcript_Position	cDNA_Change	Codon_Change	Protein_Change	Other_Transcripts	Refseq_mRNA_Id	Refseq_prot_Id	SwissProt_acc_Id	SwissProt_entry_Id	Description	UniProt_AApos	UniProt_Region	UniProt_Site	UniProt_Natural_Variations	UniProt_Experimental_Info	GO_Biological_Process	GO_Cellular_Component	GO_Molecular_Function	COSMIC_overlapping_mutations	COSMIC_fusion_genes	COSMIC_tissue_types_affected	COSMIC_total_alterations_in_gene	Tumorscape_Amplification_Peaks	Tumorscape_Deletion_Peaks	TCGAscape_Amplification_Peaks	TCGAscape_Deletion_Peaks	DrugBank	ref_context	gc_content	CCLE_ONCOMAP_overlapping_mutations	CCLE_ONCOMAP_total_mutations_in_gene	CGC_Mutation_Type	CGC_Translocation_Partner	CGC_Tumor_Types_Somatic	CGC_Tumor_Types_Germline	CGC_Other_Diseases	DNARepairGenes_Role	FamilialCancerDatabase_Syndromes	MUTSIG_Published_Results	OREGANNO_ID	OREGANNO_Values	t_alt_count	t_ref_count	validation_status	validation_method	validation_tumor_sample	validation_alt_allele	filter
PLCH2	9651	broad.mit.edu	37	1	2415902	2415902	+	Missense_Mutation	SNP	G	A	A			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr1:2415902G>A	uc001aji.1	+	5	935	c.661G>A	c.(661-663)GAC>AAC	p.D221N	PLCH2_uc010nyz.1_Missense_Mutation_p.D9N|PLCH2_uc009vle.1_Missense_Mutation_p.D9N|PLCH2_uc001ajj.1_Missense_Mutation_p.D9N|PLCH2_uc001ajk.1_Missense_Mutation_p.D9N	NM_014638	NP_055453	O75038	PLCH2_HUMAN	phospholipase C, eta 2	221	EF-hand 2.				intracellular signal transduction|lipid catabolic process	cytoplasm|plasma membrane	calcium ion binding|phosphatidylinositol phospholipase C activity|signal transducer activity			central_nervous_system(3)|ovary(1)|skin(1)	5	all_cancers(77;0.000161)|all_epithelial(69;5.98e-05)|all_lung(157;0.016)|Lung NSC(156;0.0376)|Ovarian(185;0.0634)	all_epithelial(116;7.32e-16)|all_lung(118;1.15e-06)|Lung NSC(185;6.26e-05)|Renal(390;0.00571)|Breast(487;0.00832)|Hepatocellular(190;0.0268)|Myeloproliferative disorder(586;0.028)|Ovarian(437;0.127)|Medulloblastoma(700;0.151)|Lung SC(97;0.217)		Epithelial(90;1.44e-37)|OV - Ovarian serous cystadenocarcinoma(86;6.78e-23)|GBM - Glioblastoma multiforme(42;2.8e-08)|Colorectal(212;4.19e-05)|COAD - Colon adenocarcinoma(227;0.000195)|Kidney(185;0.00034)|BRCA - Breast invasive adenocarcinoma(365;0.00443)|KIRC - Kidney renal clear cell carcinoma(229;0.00548)|STAD - Stomach adenocarcinoma(132;0.00644)|Lung(427;0.2)		GGACACGGATGACCACCAAGG	0.597													20	32	---	---	---	---	PASS
AKNAD1	254268	broad.mit.edu	37	1	109369914	109369914	+	Missense_Mutation	SNP	C	T	T			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr1:109369914C>T	uc001dwa.2	-	11	2118	c.1849G>A	c.(1849-1851)GTG>ATG	p.V617M	AKNAD1_uc010ovb.1_Missense_Mutation_p.V324M|AKNAD1_uc001dwb.2_RNA	NM_152763	NP_689976	Q5T1N1	AKND1_HUMAN	hypothetical protein LOC254268	617										ovary(3)	3						TTTTTCTCCACGTTTTGCTTC	0.383													21	230	---	---	---	---	PASS
FLG	2312	broad.mit.edu	37	1	152284212	152284212	+	Silent	SNP	C	T	T	rs149376159		TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr1:152284212C>T	uc001ezu.1	-	3	3186	c.3150G>A	c.(3148-3150)CCG>CCA	p.P1050P	uc001ezv.2_5'Flank	NM_002016	NP_002007	P20930	FILA_HUMAN	filaggrin	1050	Filaggrin 6.|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)			CTTGTCTGCGCGGAATGCCTG	0.562									Ichthyosis				33	672	---	---	---	---	PASS
TMEM214	54867	broad.mit.edu	37	2	27258872	27258872	+	Silent	SNP	G	A	A			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr2:27258872G>A	uc002ria.3	+	5	782	c.672G>A	c.(670-672)CAG>CAA	p.Q224Q	TMEM214_uc010yle.1_RNA|TMEM214_uc002rib.3_Silent_p.Q179Q	NM_017727	NP_060197	Q6NUQ4	TM214_HUMAN	transmembrane protein 214 isoform 1	224						integral to membrane	protein binding				0						TCTGTATCCAGGCCATCCTGC	0.517													18	44	---	---	---	---	PASS
CGREF1	10669	broad.mit.edu	37	2	27324422	27324422	+	Missense_Mutation	SNP	T	C	C	rs74360681	byFrequency	TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr2:27324422T>C	uc010eys.1	-	6	819	c.677A>G	c.(676-678)GAG>GGG	p.E226G	CGREF1_uc010ylf.1_Intron|CGREF1_uc002rip.1_Intron|CGREF1_uc002riq.2_Missense_Mutation_p.E226G|CGREF1_uc010eyr.1_Missense_Mutation_p.E348G|CGREF1_uc002rir.1_Missense_Mutation_p.E226G|CGREF1_uc002ris.2_Intron	NM_006569	NP_006560	Q99674	CGRE1_HUMAN	cell growth regulator with EF-hand domain 1	226					cell adhesion|cell cycle arrest|negative regulation of cell proliferation|response to stress	extracellular region	calcium ion binding			ovary(1)	1	Acute lymphoblastic leukemia(172;0.155)|all_hematologic(175;0.215)					TGCCTGGCCCTCAGCTTCCCC	0.667													20	378	---	---	---	---	PASS
IRAK2	3656	broad.mit.edu	37	3	10251301	10251301	+	Silent	SNP	G	A	A			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr3:10251301G>A	uc003bve.1	+	4	529	c.453G>A	c.(451-453)CCG>CCA	p.P151P		NM_001570	NP_001561	O43187	IRAK2_HUMAN	interleukin-1 receptor-associated kinase 2	151					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						CCCACCAGCCGGCCTTTCTCC	0.597													7	275	---	---	---	---	PASS
COL7A1	1294	broad.mit.edu	37	3	48624753	48624753	+	Silent	SNP	C	T	T			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr3:48624753C>T	uc003ctz.2	-	23	3010	c.3009G>A	c.(3007-3009)CCG>CCA	p.P1003P		NM_000094	NP_000085	Q02388	CO7A1_HUMAN	alpha 1 type VII collagen precursor	1003	Nonhelical region (NC1).|Fibronectin type-III 9.				cell adhesion|epidermis development	basement membrane|collagen type VII	protein binding|serine-type endopeptidase inhibitor activity			ovary(4)|breast(3)|skin(3)|central_nervous_system(1)	11				BRCA - Breast invasive adenocarcinoma(193;0.000293)|KIRC - Kidney renal clear cell carcinoma(197;0.00558)|Kidney(197;0.00632)		GAAGTGTCTGCGGGGACCCAG	0.602													3	31	---	---	---	---	PASS
GRM2	2912	broad.mit.edu	37	3	51746689	51746689	+	Silent	SNP	C	T	T			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr3:51746689C>T	uc010hlv.2	+	3	890	c.651C>T	c.(649-651)GGC>GGT	p.G217G	GRM2_uc003dbo.3_Intron|GRM2_uc010hlu.2_RNA	NM_000839	NP_000830	Q14416	GRM2_HUMAN	glutamate receptor, metabotropic 2 isoform a	217	Extracellular (Potential).				synaptic transmission	integral to plasma membrane				lung(1)	1				BRCA - Breast invasive adenocarcinoma(193;8.01e-05)|Kidney(197;0.000539)|KIRC - Kidney renal clear cell carcinoma(197;0.000716)	Acamprosate(DB00659)|Nicotine(DB00184)	GCGACTATGGCGAGACAGGCA	0.597													5	122	---	---	---	---	PASS
VEGFC	7424	broad.mit.edu	37	4	177650866	177650866	+	Missense_Mutation	SNP	C	G	G	rs41278571	by1000genomes	TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr4:177650866C>G	uc003ius.1	-	2	612	c.182G>C	c.(181-183)CGG>CCG	p.R61P		NM_005429	NP_005420	P49767	VEGFC_HUMAN	vascular endothelial growth factor C	61					angiogenesis|induction of positive chemotaxis|platelet activation|platelet degranulation|positive regulation of cell division|positive regulation of mast cell chemotaxis|substrate-dependent cell migration|vascular endothelial growth factor receptor signaling pathway	membrane|platelet alpha granule lumen	chemoattractant activity|growth factor activity			lung(5)	5		Breast(14;0.000223)|Renal(120;0.00988)|Prostate(90;0.00996)|Melanoma(52;0.0101)|all_hematologic(60;0.107)|all_neural(102;0.164)		all cancers(43;1.59e-18)|Epithelial(43;3.68e-16)|OV - Ovarian serous cystadenocarcinoma(60;8.52e-09)|GBM - Glioblastoma multiforme(59;0.000546)|STAD - Stomach adenocarcinoma(60;0.00308)|Colorectal(24;0.025)|COAD - Colon adenocarcinoma(29;0.0359)|LUSC - Lung squamous cell carcinoma(193;0.0397)		GGACACAGACCGTAACTGCTC	0.408													42	69	---	---	---	---	PASS
DMXL1	1657	broad.mit.edu	37	5	118469852	118469852	+	Missense_Mutation	SNP	C	G	G			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr5:118469852C>G	uc003ksd.2	+	12	2414	c.2233C>G	c.(2233-2235)CTT>GTT	p.L745V	DMXL1_uc010jcl.1_Missense_Mutation_p.L745V|DMXL1_uc003ksc.1_Missense_Mutation_p.L745V	NM_005509	NP_005500	Q9Y485	DMXL1_HUMAN	Dmx-like 1	745										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)		GCTGCCCACTCTTATACCCAG	0.383													8	242	---	---	---	---	PASS
GRM1	2911	broad.mit.edu	37	6	146480672	146480672	+	Nonsense_Mutation	SNP	C	T	T			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr6:146480672C>T	uc010khw.1	+	3	1359	c.889C>T	c.(889-891)CGA>TGA	p.R297*	GRM1_uc010khu.1_Nonsense_Mutation_p.R297*|GRM1_uc010khv.1_Nonsense_Mutation_p.R297*|GRM1_uc003qll.2_Nonsense_Mutation_p.R297*|GRM1_uc011edz.1_Nonsense_Mutation_p.R297*|GRM1_uc011eea.1_Nonsense_Mutation_p.R297*	NM_000838	NP_000829	Q13255	GRM1_HUMAN	glutamate receptor, metabotropic 1 isoform alpha	297	Extracellular (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)	CATGACAGTGCGAGGACTCCT	0.488													4	61	---	---	---	---	PASS
AKAP12	9590	broad.mit.edu	37	6	151672372	151672372	+	Missense_Mutation	SNP	C	T	T			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr6:151672372C>T	uc011eep.1	+	4	3086	c.2846C>T	c.(2845-2847)ACG>ATG	p.T949M	AKAP12_uc003qoe.2_Missense_Mutation_p.T949M|AKAP12_uc003qof.2_Missense_Mutation_p.T851M|AKAP12_uc010kim.2_Intron|AKAP12_uc003qog.2_Missense_Mutation_p.T844M	NM_005100	NP_005091	Q02952	AKA12_HUMAN	A kinase (PRKA) anchor protein 12 isoform 1	949					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)		GAACCCCCCACGGTTACTGAA	0.527													5	136	---	---	---	---	PASS
SPDYE7P	441251	broad.mit.edu	37	7	72336988	72336988	+	RNA	SNP	G	A	A			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr7:72336988G>A	uc010lal.1	-	1		c.2668C>T				NR_003666				Homo sapiens speedy homolog E7 (Xenopus laevis), pseudogene (SPDYE7P), non-coding RNA.												0						AGGCCGGCCCGGCTGAAATAC	0.522													7	300	---	---	---	---	PASS
AMAC1L2	83650	broad.mit.edu	37	8	11189402	11189402	+	Missense_Mutation	SNP	G	A	A			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr8:11189402G>A	uc003wtp.1	+	1	908	c.787G>A	c.(787-789)GCC>ACC	p.A263T		NM_054028	NP_473369	Q96KT7	AMCL2_HUMAN	acyl-malonyl condensing enzyme	263	Helical; (Potential).					integral to membrane					0			STAD - Stomach adenocarcinoma(15;0.00676)	COAD - Colon adenocarcinoma(149;0.0563)		GGGGATCCTCGCCTTGGTCTC	0.627													7	184	---	---	---	---	PASS
KCNB2	9312	broad.mit.edu	37	8	73848458	73848458	+	Missense_Mutation	SNP	G	A	A			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr8:73848458G>A	uc003xzb.2	+	3	1456	c.868G>A	c.(868-870)GTG>ATG	p.V290M		NM_004770	NP_004761	Q92953	KCNB2_HUMAN	potassium voltage-gated channel, Shab-related	290					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)			CAACAAGAGCGTGCTGCAGTT	0.502													9	124	---	---	---	---	PASS
SNTB1	6641	broad.mit.edu	37	8	121823678	121823678	+	Missense_Mutation	SNP	G	A	A			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr8:121823678G>A	uc010mdg.2	-	1	632	c.406C>T	c.(406-408)CCC>TCC	p.P136S	SNTB1_uc003ype.2_Missense_Mutation_p.P136S	NM_021021	NP_066301	Q13884	SNTB1_HUMAN	basic beta 1 syntrophin	136	PH 1.|PDZ.				muscle contraction	cell junction|cytoplasm|cytoskeleton|dystrophin-associated glycoprotein complex|sarcolemma	actin binding|calmodulin binding			skin(5)	5	Lung NSC(37;4.46e-09)|Ovarian(258;0.0254)|Hepatocellular(40;0.0997)		STAD - Stomach adenocarcinoma(47;0.00503)			ATGAGGATGGGCATCTTGTTC	0.637													4	69	---	---	---	---	PASS
FAM135B	51059	broad.mit.edu	37	8	139278045	139278045	+	Silent	SNP	G	A	A			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr8:139278045G>A	uc003yuy.2	-	4	369	c.198C>T	c.(196-198)ACC>ACT	p.T66T	FAM135B_uc003yux.2_5'UTR|FAM135B_uc003yuz.2_RNA	NM_015912	NP_056996	Q49AJ0	F135B_HUMAN	hypothetical protein LOC51059	66										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)			GGCTGTGCACGGTGCTGTCAT	0.502										HNSCC(54;0.14)			3	78	---	---	---	---	PASS
KIFC2	90990	broad.mit.edu	37	8	145693004	145693004	+	Missense_Mutation	SNP	C	G	G			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr8:145693004C>G	uc003zcz.2	+	5	671	c.606C>G	c.(604-606)ATC>ATG	p.I202M	CYHR1_uc003zcv.2_5'Flank|CYHR1_uc003zcw.2_5'Flank|CYHR1_uc003zcx.2_5'Flank|CYHR1_uc003zcy.2_5'Flank	NM_145754	NP_665697	Q96AC6	KIFC2_HUMAN	kinesin family member C2	202	Potential.|Gln-rich.				microtubule-based movement	cytoplasm|microtubule	ATP binding|microtubule motor activity|protein binding			ovary(2)|central_nervous_system(1)	3	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)			AGCAGCTCATCCTGGGACAGG	0.647											OREG0019057	type=REGULATORY REGION|TFbs=CTCF|Dataset=CTCF ChIP-chip sites (Ren lab)|EvidenceSubtype=ChIP-on-chip (ChIP-chip)	3	61	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	9	68414506	68414506	+	RNA	SNP	C	A	A	rs75347819		TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr9:68414506C>A	uc004aex.2	+	1		c.1061C>A								Homo sapiens mRNA; cDNA DKFZp564N0763 (from clone DKFZp564N0763).																		aaaatctattctttctgtgct	0.000													6	10	---	---	---	---	PASS
SUSD1	64420	broad.mit.edu	37	9	114840901	114840901	+	Missense_Mutation	SNP	C	T	T			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr9:114840901C>T	uc004bfu.2	-	12	1711	c.1670G>A	c.(1669-1671)CGT>CAT	p.R557H	SUSD1_uc010mui.2_Missense_Mutation_p.R557H|SUSD1_uc010muj.2_Missense_Mutation_p.R557H	NM_022486	NP_071931	Q6UWL2	SUSD1_HUMAN	sushi domain containing 1 precursor	557	Extracellular (Potential).					integral to membrane	calcium ion binding				0						GGTACCCGGACGTAGGTCCAA	0.493													13	122	---	---	---	---	PASS
KIF5B	3799	broad.mit.edu	37	10	32337438	32337438	+	Silent	SNP	T	C	C			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr10:32337438T>C	uc001iwe.3	-	2	638	c.168A>G	c.(166-168)ACA>ACG	p.T56T		NM_004521	NP_004512	P33176	KINH_HUMAN	kinesin family member 5B	56	Kinesin-motor.				stress granule disassembly|vesicle transport along microtubule	kinesin complex|microtubule|perinuclear region of cytoplasm|vesicle	ATP binding|microtubule binding|microtubule motor activity		KIF5B/ALK(4)	lung(4)|ovary(1)	5		Prostate(175;0.0137)				GCTCTTGAGATGTGCTTGACT	0.338													5	134	---	---	---	---	PASS
C10orf79	80217	broad.mit.edu	37	10	105922136	105922136	+	Missense_Mutation	SNP	G	A	A			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr10:105922136G>A	uc001kxw.2	-	25	3388	c.3272C>T	c.(3271-3273)CCG>CTG	p.P1091L	C10orf79_uc009xxq.2_Missense_Mutation_p.P399L	NM_025145	NP_079421	Q8NDM7	WDR96_HUMAN	hypothetical protein LOC80217	1091											0		Colorectal(252;0.178)		Epithelial(162;4.83e-10)|all cancers(201;2.26e-08)|BRCA - Breast invasive adenocarcinoma(275;0.0194)		TTTGTGCCACGGCTTAATGTG	0.403													5	182	---	---	---	---	PASS
MUC2	4583	broad.mit.edu	37	11	1092926	1092926	+	Missense_Mutation	SNP	C	G	G			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr11:1092926C>G	uc001lsx.1	+	31	11858	c.11831C>G	c.(11830-11832)ACC>AGC	p.T3944S		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	3944						inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|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;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	cagaccccaacatcgacaccc	0.199													3	22	---	---	---	---	PASS
MUC2	4583	broad.mit.edu	37	11	1093368	1093368	+	Silent	SNP	G	A	A	rs111440994		TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr11:1093368G>A	uc001lsx.1	+	31	12300	c.12273G>A	c.(12271-12273)ACG>ACA	p.T4091T		NM_002457	NP_002448	Q02817	MUC2_HUMAN	mucin 2 precursor	4091						inner mucus layer|outer mucus layer	protein binding			lung(1)|breast(1)	2		all_cancers(49;1.08e-07)|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;0.191)		BRCA - Breast invasive adenocarcinoma(625;0.000207)|Lung(200;0.0576)|LUSC - Lung squamous cell carcinoma(625;0.0703)	Pranlukast(DB01411)	ccaccactacggtgaccccaa	0.000													3	24	---	---	---	---	PASS
OR10A4	283297	broad.mit.edu	37	11	6898608	6898608	+	Missense_Mutation	SNP	G	A	A			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr11:6898608G>A	uc010rat.1	+	1	730	c.730G>A	c.(730-732)GCC>ACC	p.A244T		NM_207186	NP_997069	Q9H209	O10A4_HUMAN	olfactory receptor, family 10, subfamily A,	244	Helical; Name=6; (Potential).				sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			ovary(1)	1		Medulloblastoma(188;0.0523)|all_neural(188;0.236)		Epithelial(150;4.78e-08)|BRCA - Breast invasive adenocarcinoma(625;0.129)		CACCTGTTCCGCCCACCTCTT	0.527													15	157	---	---	---	---	PASS
NAV2	89797	broad.mit.edu	37	11	20119232	20119232	+	Missense_Mutation	SNP	A	G	G			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr11:20119232A>G	uc001mpr.3	+	31	6492	c.6131A>G	c.(6130-6132)GAG>GGG	p.E2044G	NAV2_uc001mpp.2_Missense_Mutation_p.E1977G|NAV2_uc009yhx.2_Missense_Mutation_p.E1105G|NAV2_uc009yhz.2_Missense_Mutation_p.E686G|NAV2_uc001mpu.2_Missense_Mutation_p.E479G	NM_182964	NP_892009	Q8IVL1	NAV2_HUMAN	neuron navigator 2 isoform 1	2100						nucleus	ATP binding|helicase activity			skin(4)|ovary(1)|pancreas(1)	6						GAAACACCGGAGCTGCTTCCT	0.493													8	135	---	---	---	---	PASS
CASP1	834	broad.mit.edu	37	11	104897573	104897573	+	Missense_Mutation	SNP	C	T	T	rs148018877		TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr11:104897573C>T	uc010rve.1	-	8	1129	c.1112G>A	c.(1111-1113)CGC>CAC	p.R371H	CASP1_uc001pig.2_Missense_Mutation_p.R278H|CASP1_uc001pik.2_Missense_Mutation_p.R334H|CASP1_uc010rvf.1_Missense_Mutation_p.R278H|CASP1_uc010rvg.1_Missense_Mutation_p.R350H|CASP1_uc010rvh.1_Missense_Mutation_p.R230H|CASP1_uc010rvi.1_Missense_Mutation_p.R55H|CASP1_uc001pim.3_Missense_Mutation_p.R371H|CASP1_uc009yxi.2_Missense_Mutation_p.R350H|CASP1_uc010rvj.1_Missense_Mutation_p.R371H|CASP1_uc009yxj.2_Missense_Mutation_p.R216H|CASP1_uc010rvk.1_3'UTR	NM_033292	NP_150634	P29466	CASP1_HUMAN	caspase 1 isoform alpha precursor	371					cellular response to mechanical stimulus|cellular response to organic substance|positive regulation of I-kappaB kinase/NF-kappaB cascade|proteolysis|signal transduction	cytosol	caspase activator activity|cysteine-type endopeptidase activity|protein binding			ovary(2)	2		Acute lymphoblastic leukemia(157;0.000967)|all_hematologic(158;0.0017)|Melanoma(852;0.0047)		BRCA - Breast invasive adenocarcinoma(274;0.000525)|Epithelial(105;0.0128)|all cancers(92;0.0482)	Minocycline(DB01017)|Penicillamine(DB00859)	TCTTACCTTGCGGAAAATTTC	0.408													8	118	---	---	---	---	PASS
GNB3	2784	broad.mit.edu	37	12	6950751	6950751	+	Missense_Mutation	SNP	A	G	G			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr12:6950751A>G	uc001qrd.2	+	4	464	c.59A>G	c.(58-60)GAT>GGT	p.D20G	GNB3_uc001qrc.2_5'UTR|GNB3_uc009zfe.2_Missense_Mutation_p.D20G	NM_002075	NP_002066	P16520	GBB3_HUMAN	guanine nucleotide-binding protein, beta-3	20					cellular response to glucagon stimulus|energy reserve metabolic process|G-protein coupled receptor protein signaling pathway|regulation of blood pressure|synaptic transmission	plasma membrane	GTPase activity|GTPase binding|signal transducer activity				0						TCCCTGCAGGATGCCAGGAAA	0.667													12	28	---	---	---	---	PASS
LOC653113	653113	broad.mit.edu	37	12	8384596	8384596	+	RNA	SNP	T	G	G	rs55877873	by1000genomes	TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr12:8384596T>G	uc010sgk.1	-	5		c.1192A>C				NR_024254				Homo sapiens family with sequence similarity 86, member A pseudogene (LOC653113), non-coding RNA.												0						CCCATGCCCCTGCTAGCGTAT	0.527													3	8	---	---	---	---	PASS
ATF7IP	55729	broad.mit.edu	37	12	14587301	14587301	+	Missense_Mutation	SNP	A	G	G	rs3213764	byFrequency	TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr12:14587301A>G	uc001rbw.2	+	3	1747	c.1589A>G	c.(1588-1590)AAA>AGA	p.K530R	ATF7IP_uc010shs.1_Missense_Mutation_p.K529R|ATF7IP_uc001rbu.2_Missense_Mutation_p.K530R|ATF7IP_uc001rbv.1_Missense_Mutation_p.K529R|ATF7IP_uc001rbx.2_Missense_Mutation_p.K529R|ATF7IP_uc010sht.1_Missense_Mutation_p.K530R|ATF7IP_uc001rby.3_Missense_Mutation_p.K530R|ATF7IP_uc001rca.2_Missense_Mutation_p.K530R	NM_018179	NP_060649	Q6VMQ6	MCAF1_HUMAN	activating transcription factor 7 interacting	530	Glu-rich.				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						AAGGACAACAAACCTGAGGAA	0.294													3	73	---	---	---	---	PASS
SLC38A1	81539	broad.mit.edu	37	12	46594935	46594935	+	Missense_Mutation	SNP	C	T	T			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr12:46594935C>T	uc001rpa.2	-	13	1207	c.949G>A	c.(949-951)GCC>ACC	p.A317T	SLC38A1_uc001rpb.2_Missense_Mutation_p.A317T|SLC38A1_uc001rpc.2_Missense_Mutation_p.A317T|SLC38A1_uc001rpd.2_Missense_Mutation_p.A317T|SLC38A1_uc001rpe.2_Missense_Mutation_p.A317T|SLC38A1_uc010slh.1_Missense_Mutation_p.A290T|SLC38A1_uc009zkj.1_Missense_Mutation_p.A317T	NM_030674	NP_109599	Q9H2H9	S38A1_HUMAN	amino acid transporter system A1	317	Helical; (Potential).				cellular nitrogen compound metabolic process|neurotransmitter uptake	integral to membrane|plasma membrane	sodium:amino acid symporter activity			ovary(2)|skin(2)|central_nervous_system(1)	5	Lung SC(27;0.137)|Renal(347;0.236)		all cancers(1;0.00805)|OV - Ovarian serous cystadenocarcinoma(5;0.0106)|Epithelial(2;0.0344)			ACAAACATGGCGAAAAAGGAG	0.289													14	29	---	---	---	---	PASS
PCK2	5106	broad.mit.edu	37	14	24572967	24572967	+	Missense_Mutation	SNP	A	G	G			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr14:24572967A>G	uc001wlt.2	+	10	1849	c.1717A>G	c.(1717-1719)ATT>GTT	p.I573V	NRL_uc001wlq.2_Intron|PCK2_uc001wlr.1_Intron|PCK2_uc010tnw.1_Missense_Mutation_p.I439V|PCK2_uc010tnx.1_Missense_Mutation_p.I439V|PCK2_uc001wlu.3_Missense_Mutation_p.I407V	NM_004563	NP_004554	Q16822	PCKGM_HUMAN	mitochondrial phosphoenolpyruvate carboxykinase	573					gluconeogenesis	mitochondrial matrix	GTP binding|metal ion binding|phosphoenolpyruvate carboxykinase (GTP) activity			ovary(1)	1				GBM - Glioblastoma multiforme(265;0.0184)		AGAGACACCCATTGGGCTGGT	0.607													41	65	---	---	---	---	PASS
MLH3	27030	broad.mit.edu	37	14	75515946	75515946	+	Missense_Mutation	SNP	G	C	C			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr14:75515946G>C	uc001xrd.1	-	2	629	c.413C>G	c.(412-414)ACT>AGT	p.T138S	MLH3_uc001xre.1_Missense_Mutation_p.T138S|MLH3_uc010tuy.1_RNA	NM_001040108	NP_001035197	Q9UHC1	MLH3_HUMAN	mutL homolog 3 isoform 1	138					mismatch repair|reciprocal meiotic recombination	chiasma|MutLbeta complex|synaptonemal complex	ATP binding|ATPase activity|mismatched DNA binding|protein binding|satellite DNA binding			ovary(1)|skin(1)	2				BRCA - Breast invasive adenocarcinoma(234;0.00688)		GCTTGCTCTAGTCACATCAGC	0.428								MMR					10	186	---	---	---	---	PASS
ASB2	51676	broad.mit.edu	37	14	94420665	94420665	+	Missense_Mutation	SNP	C	T	T			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr14:94420665C>T	uc001ycc.1	-	2	821	c.332G>A	c.(331-333)CGA>CAA	p.R111Q	ASB2_uc001ycd.2_Missense_Mutation_p.R159Q|ASB2_uc001yce.1_Missense_Mutation_p.R57Q	NM_016150	NP_057234	Q96Q27	ASB2_HUMAN	ankyrin repeat and SOCS box-containing protein	111	ANK 2.				intracellular signal transduction					ovary(1)|pancreas(1)	2		all_cancers(154;0.13)		COAD - Colon adenocarcinoma(157;0.217)|Epithelial(152;0.232)		GCCCTCACCTCGCTGCAGGAC	0.612													4	76	---	---	---	---	PASS
ALDH1A2	8854	broad.mit.edu	37	15	58306075	58306075	+	Missense_Mutation	SNP	C	G	G			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr15:58306075C>G	uc002aex.2	-	3	402	c.344G>C	c.(343-345)CGG>CCG	p.R115P	ALDH1A2_uc002aey.2_Missense_Mutation_p.R115P|ALDH1A2_uc010ugv.1_Missense_Mutation_p.R94P|ALDH1A2_uc010ugw.1_Missense_Mutation_p.R86P|ALDH1A2_uc002aew.2_Missense_Mutation_p.R19P	NM_003888	NP_003879	O94788	AL1A2_HUMAN	aldehyde dehydrogenase 1A2 isoform 1	115					negative regulation of cell proliferation|neural tube development|response to cytokine stimulus	nucleus	3-chloroallyl aldehyde dehydrogenase activity|retinal binding|retinal dehydrogenase activity			central_nervous_system(1)	1				GBM - Glioblastoma multiforme(80;0.152)|all cancers(107;0.18)	NADH(DB00157)|Tretinoin(DB00755)|Vitamin A(DB00162)	TGCCCTGTCCCGTTCCACCAA	0.458													19	532	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	15	62535030	62535030	+	RNA	SNP	G	A	A	rs1996469	by1000genomes	TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr15:62535030G>A	uc002ain.1	-	11		c.2617C>T			uc002air.1_5'Flank|uc002ais.2_5'Flank|uc002ait.2_5'Flank|uc002aiu.2_5'Flank|uc002aiv.2_5'Flank|uc002aix.1_5'Flank|uc002aiy.2_5'Flank|uc002aiz.1_5'Flank|uc002aja.2_5'Flank|uc002ajb.2_5'Flank|uc002ajc.2_5'Flank|uc002ajd.2_5'Flank|uc002aje.2_5'Flank|uc002ajf.2_5'Flank|uc010uhn.1_5'Flank|uc002ajg.1_5'Flank|uc002aji.2_5'Flank					Homo sapiens cDNA FLJ38723 fis, clone KIDNE2010137, weakly similar to GOLGIN-95.																		AAGCCTGGGCGCTCCTGGGGG	0.562													5	4	---	---	---	---	PASS
ARIH1	25820	broad.mit.edu	37	15	72873082	72873082	+	Missense_Mutation	SNP	C	A	A			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr15:72873082C>A	uc002aut.3	+	12	1540	c.1226C>A	c.(1225-1227)GCA>GAA	p.A409E		NM_005744	NP_005735	Q9Y4X5	ARI1_HUMAN	ariadne ubiquitin-conjugating enzyme E2 binding	409					ubiquitin-dependent protein catabolic process	cytoplasm|ubiquitin ligase complex	ubiquitin protein ligase binding|ubiquitin-protein ligase activity|zinc ion binding				0						CGATCTAGGGCAGCCCTGCAG	0.353													8	66	---	---	---	---	PASS
ADCY9	115	broad.mit.edu	37	16	4016225	4016225	+	Missense_Mutation	SNP	G	A	A			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr16:4016225G>A	uc002cvx.2	-	11	4152	c.3613C>T	c.(3613-3615)CGC>TGC	p.R1205C		NM_001116	NP_001107	O60503	ADCY9_HUMAN	adenylate cyclase 9	1205	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 plasma membrane	adenylate cyclase activity|ATP binding|metal ion binding			ovary(4)|large_intestine(1)|central_nervous_system(1)	6						ACCTGGATGCGGCACTCCACG	0.597													7	176	---	---	---	---	PASS
IRF8	3394	broad.mit.edu	37	16	85936702	85936702	+	Silent	SNP	T	C	C			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr16:85936702T>C	uc002fjh.2	+	2	138	c.81T>C	c.(79-81)ATT>ATC	p.I27I	IRF8_uc002fji.2_Silent_p.I27I	NM_002163	NP_002154	Q02556	IRF8_HUMAN	interferon regulatory factor 8	27	IRF tryptophan pentad repeat.				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)				CAGGACTGATTTGGGAGAATG	0.478													3	74	---	---	---	---	PASS
PTPRM	5797	broad.mit.edu	37	18	8113637	8113637	+	Silent	SNP	C	A	A			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr18:8113637C>A	uc002knn.3	+	12	2513	c.2010C>A	c.(2008-2010)CTC>CTA	p.L670L	PTPRM_uc010dkv.2_Silent_p.L670L|PTPRM_uc010wzl.1_Silent_p.L457L	NM_002845	NP_002836	P28827	PTPRM_HUMAN	protein tyrosine phosphatase, receptor type, M	670	Fibronectin type-III 4.|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)				CAGACAGCCTCCAAGCTGCGC	0.423													93	114	---	---	---	---	PASS
ADAMTSL5	339366	broad.mit.edu	37	19	1507384	1507384	+	Missense_Mutation	SNP	G	A	A			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr19:1507384G>A	uc002ltd.2	-	9	1153	c.709C>T	c.(709-711)CGC>TGC	p.R237C	ADAMTSL5_uc010dsl.2_Missense_Mutation_p.R6C|ADAMTSL5_uc010xgq.1_Missense_Mutation_p.R247C	NM_213604	NP_998769	Q6ZMM2	ATL5_HUMAN	ADAMTS-like 5 precursor	237						proteinaceous extracellular matrix	metalloendopeptidase activity|zinc ion binding				0		Acute lymphoblastic leukemia(61;5.61e-13)|all_hematologic(61;2.65e-08)		UCEC - Uterine corpus endometrioid carcinoma (162;6.64e-05)|OV - Ovarian serous cystadenocarcinoma(105;1.09e-113)|Epithelial(107;3.79e-112)|all cancers(105;1.67e-104)|BRCA - Breast invasive adenocarcinoma(158;0.00136)|STAD - Stomach adenocarcinoma(1328;0.18)		AGCACGTAGCGCCCATCGCCC	0.592													11	82	---	---	---	---	PASS
GPATCH1	55094	broad.mit.edu	37	19	33584366	33584366	+	Silent	SNP	C	T	T	rs139698891		TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr19:33584366C>T	uc002nug.1	+	4	710	c.396C>T	c.(394-396)GCC>GCT	p.A132A		NM_018025	NP_060495	Q9BRR8	GPTC1_HUMAN	G patch domain containing 1	132						catalytic step 2 spliceosome	nucleic acid binding			skin(1)	1	Esophageal squamous(110;0.137)					GGCAGTTGGCCGCTGCTACTG	0.488													56	99	---	---	---	---	PASS
FCGBP	8857	broad.mit.edu	37	19	40392347	40392347	+	Missense_Mutation	SNP	C	G	G	rs139175656	byFrequency	TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr19:40392347C>G	uc002omp.3	-	16	8165	c.8157G>C	c.(8155-8157)CAG>CAC	p.Q2719H		NM_003890	NP_003881	Q9Y6R7	FCGBP_HUMAN	Fc fragment of IgG binding protein precursor	2719				Q -> H (in Ref. 1; BAA19526).		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)			AGGGCTCCACCTGGCCTCCAG	0.592													8	16	---	---	---	---	PASS
CEACAM6	4680	broad.mit.edu	37	19	42259586	42259586	+	Missense_Mutation	SNP	C	A	A			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr19:42259586C>A	uc002orm.2	+	1	189	c.40C>A	c.(40-42)CCC>ACC	p.P14T		NM_002483	NP_002474	P40199	CEAM6_HUMAN	carcinoembryonic antigen-related cell adhesion	14					cell-cell signaling|signal transduction	anchored to membrane|integral to plasma membrane				ovary(1)	1				OV - Ovarian serous cystadenocarcinoma(3;0.00575)|all cancers(3;0.0352)|Epithelial(262;0.0797)		ATTGCATGTCCCCTGGAAGGA	0.607													5	97	---	---	---	---	PASS
MAPRE1	22919	broad.mit.edu	37	20	31427559	31427559	+	Nonsense_Mutation	SNP	C	G	G			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr20:31427559C>G	uc002wyh.2	+	5	633	c.494C>G	c.(493-495)TCA>TGA	p.S165*		NM_012325	NP_036457	Q15691	MARE1_HUMAN	microtubule-associated protein, RP/EB family,	165	Interaction with MTUS2/TIP150.				cell division|cell proliferation|G2/M transition of mitotic cell cycle|mitotic prometaphase|negative regulation of microtubule polymerization|protein localization to microtubule	centrosome|cortical microtubule cytoskeleton|cytosol	microtubule plus-end binding|protein C-terminus binding				0						AGGCCCATCTCAACACAGAGA	0.527													12	457	---	---	---	---	PASS
HDAC8	55869	broad.mit.edu	37	X	71787745	71787745	+	Missense_Mutation	SNP	G	C	C			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chrX:71787745G>C	uc004eau.2	-	4	473	c.431C>G	c.(430-432)GCA>GGA	p.A144G	HDAC8_uc011mqe.1_Missense_Mutation_p.Q2E|HDAC8_uc011mqf.1_Intron|HDAC8_uc011mqg.1_Intron|HDAC8_uc011mqh.1_Intron|HDAC8_uc010nlk.1_Missense_Mutation_p.A15G|HDAC8_uc004eav.2_Missense_Mutation_p.A144G|HDAC8_uc004eaw.2_RNA	NM_018486	NP_060956	Q9BY41	HDAC8_HUMAN	histone deacetylase 8	144	Histone deacetylase.				chromatin assembly or disassembly|negative regulation of transcription from RNA polymerase II promoter|transcription, DNA-dependent	cytoplasm|histone deacetylase complex|nuclear chromosome	histone deacetylase activity (H3-K16 specific)|metal ion binding|NAD-dependent histone deacetylase activity (H3-K14 specific)|NAD-dependent histone deacetylase activity (H3-K9 specific)|NAD-dependent histone deacetylase activity (H4-K16 specific)|transcription factor binding				0	Renal(35;0.156)				Vorinostat(DB02546)	TTACTTCTTTGCATGATGCCA	0.418													11	122	---	---	---	---	PASS
SLITRK4	139065	broad.mit.edu	37	X	142718073	142718073	+	Nonsense_Mutation	SNP	G	T	T			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chrX:142718073G>T	uc004fbx.2	-	2	1228	c.852C>A	c.(850-852)TAC>TAA	p.Y284*	SLITRK4_uc004fby.2_Nonsense_Mutation_p.Y284*	NM_173078	NP_775101	Q8IW52	SLIK4_HUMAN	slit and trk like 4 protein precursor	284	Extracellular (Potential).					integral to membrane				upper_aerodigestive_tract(1)|large_intestine(1)	2	Acute lymphoblastic leukemia(192;6.56e-05)					TGGGAGTGGTGTAGCCATTTT	0.453													10	116	---	---	---	---	PASS
Unknown	0	broad.mit.edu	37	M	11991	11991	+	RNA	SNP	T	C	C			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chrM:11991T>C	uc004cov.3	+	1		c.1414T>C			uc004cow.1_5'Flank|uc004cox.3_5'Flank|uc004coy.2_5'Flank					Homo sapiens potential LAG1 interactor mRNA, partial cds.																		CCTCTACATATTTACCACAAC	0.438													194	38	---	---	---	---	PASS
MIR1293	100302220	broad.mit.edu	37	12	50627995	50627995	+	RNA	DEL	T	-	-			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chr12:50627995delT	hsa-mir-1293|MI0006355	-			c.1delT			LIMA1_uc001rwj.3_Intron|LIMA1_uc001rwk.3_Intron|LIMA1_uc010smr.1_Intron|LIMA1_uc010sms.1_Intron																	0						CAGAACAACCttttttttttt	0.229													2	4	---	---	---	---	
TSIX	9383	broad.mit.edu	37	X	73043145	73043145	+	RNA	DEL	T	-	-			TCGA-CH-5790-01A-11D-1576-08	TCGA-CH-5790-10A-01D-1576-08									Somatic	Phase_I	Capture				Illumina GAIIx	f1730f32-f97d-49e7-beb7-593c8ca8a907	c66f09bd-db15-4633-aeba-4f579345c6d0	g.chrX:73043145delT	uc004ebn.2	+	1		c.31106delT			XIST_uc004ebm.1_RNA	NR_003255				Homo sapiens XIST antisense RNA (non-protein coding) (TSIX), non-coding RNA.												0						tttttctttcttttttttttt	0.338													4	4	---	---	---	---	
