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_alt_allele	validation_method	validation_status	validation_tumor_sample	pox	qox	pox_cutoff	isArtifactMode	oxoGCut
TUBB8P7	0	broad.mit.edu	37	16	90161852	90161852	+	RNA	SNP	A	A	G	rs11076666	by1000genomes	TCGA-DJ-A4UR-01A-11D-A257-08	TCGA-DJ-A4UR-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96322657-d1a7-41c1-bdf0-24497e508a24	87d1c17c-cf0f-439f-bf79-1e3a6e092738	g.chr16:90161852A>G	ENST00000567960.1	+	0	588				TUBB8P7_ENST00000564451.1_RNA																							TAGAAAACGCAGATGAGACCT	0.498000													4	64					0	0	1	0	0
HUWE1	10075	broad.mit.edu	37	X	53635851	53635851	+	Missense_Mutation	SNP	G	G	A			TCGA-DJ-A4UR-01A-11D-A257-08	TCGA-DJ-A4UR-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96322657-d1a7-41c1-bdf0-24497e508a24	87d1c17c-cf0f-439f-bf79-1e3a6e092738	g.chrX:53635851G>A	ENST00000342160.3	-	23	2738	c.2281C>T	c.(2281-2283)Cgt>Tgt	p.R761C	HUWE1_ENST00000218328.8_Missense_Mutation_p.R761C|HUWE1_ENST00000262854.6_Missense_Mutation_p.R761C			Q7Z6Z7	HUWE1_HUMAN	HECT, UBA and WWE domain containing 1, E3 ubiquitin protein ligase	761					base-excision repair|cell differentiation|histone ubiquitination|protein monoubiquitination|protein polyubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	cytoplasm|nucleus	DNA binding|protein binding|ubiquitin-protein ligase activity			NS(1)|breast(15)|central_nervous_system(1)|cervix(1)|endometrium(17)|haematopoietic_and_lymphoid_tissue(4)|kidney(8)|large_intestine(29)|liver(2)|lung(52)|ovary(11)|prostate(2)|skin(5)|upper_aerodigestive_tract(3)|urinary_tract(2)	153						ATAGGAATACGTTCCTCTGTA	0.388000													24	52					0	0	1	0	0
MXRA5	25878	broad.mit.edu	37	X	3241966	3241966	+	Missense_Mutation	SNP	A	A	G	rs147548313		TCGA-DJ-A4UR-01A-11D-A257-08	TCGA-DJ-A4UR-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96322657-d1a7-41c1-bdf0-24497e508a24	87d1c17c-cf0f-439f-bf79-1e3a6e092738	g.chrX:3241966A>G	ENST00000217939.6	-	5	1914	c.1760T>C	c.(1759-1761)aTt>aCt	p.I587T		NM_015419.3	NP_056234.2	Q9NR99	MXRA5_HUMAN	matrix-remodelling associated 5	587	Ig-like C2-type 2.					extracellular region				NS(1)|biliary_tract(1)|breast(4)|central_nervous_system(3)|cervix(2)|endometrium(8)|kidney(2)|large_intestine(32)|lung(81)|ovary(6)|prostate(3)|skin(9)|stomach(3)|urinary_tract(2)	157		all_lung(23;0.00031)|Lung NSC(23;0.000946)				GTTCTTGCCAATTGTCACTGT	0.488000													11	16					0	0	1	0	0
CILP2	148113	broad.mit.edu	37	19	19655920	19655920	+	Missense_Mutation	SNP	C	C	T			TCGA-DJ-A4UR-01A-11D-A257-08	TCGA-DJ-A4UR-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96322657-d1a7-41c1-bdf0-24497e508a24	87d1c17c-cf0f-439f-bf79-1e3a6e092738	g.chr19:19655920C>T	ENST00000586018.1	+	8	2686	c.2584C>T	c.(2584-2586)Cgt>Tgt	p.R862C	CILP2_ENST00000291495.4_Missense_Mutation_p.R856C			Q8IUL8	CILP2_HUMAN	cartilage intermediate layer protein 2	856						proteinaceous extracellular matrix	carbohydrate binding|carboxypeptidase activity			NS(1)|breast(1)|endometrium(1)|haematopoietic_and_lymphoid_tissue(3)|large_intestine(3)|lung(17)|ovary(2)|prostate(2)|skin(1)|urinary_tract(1)	32						CGCCTTCAAGCGTAACGGCTT	0.697000													14	33					0	0	1	0	0
TENM1	10178	broad.mit.edu	37	X	123615678	123615678	+	Missense_Mutation	SNP	C	C	A			TCGA-DJ-A4UR-01A-11D-A257-08	TCGA-DJ-A4UR-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96322657-d1a7-41c1-bdf0-24497e508a24	87d1c17c-cf0f-439f-bf79-1e3a6e092738	g.chrX:123615678C>A	ENST00000422452.2	-	22	3916	c.3853G>T	c.(3853-3855)Gtg>Ttg	p.V1285L	TENM1_ENST00000371130.3_Missense_Mutation_p.V1278L|TENM1_ENST00000461429.1_5'UTR	NM_001163278.1|NM_001163279.1	NP_001156750.1|NP_001156751.1			teneurin transmembrane protein 1																		CCTGCCACCACTTCAAAATTC	0.468000													7	80					2.7689e-08	3.11501e-08	1	1	0
LRFN5	145581	broad.mit.edu	37	14	42355903	42355903	+	Silent	SNP	C	C	A			TCGA-DJ-A4UR-01A-11D-A257-08	TCGA-DJ-A4UR-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96322657-d1a7-41c1-bdf0-24497e508a24	87d1c17c-cf0f-439f-bf79-1e3a6e092738	g.chr14:42355903C>A	ENST00000554171.1	+	5	2507	c.75C>A	c.(73-75)gtC>gtA	p.V25V	LRFN5_ENST00000298119.4_Silent_p.V25V|LRFN5_ENST00000554120.1_Silent_p.V25V			Q96NI6	LRFN5_HUMAN	leucine rich repeat and fibronectin type III domain containing 5	25	LRRNT.					integral to membrane				breast(1)|central_nervous_system(1)|cervix(1)|endometrium(3)|kidney(4)|large_intestine(12)|liver(1)|lung(67)|ovary(5)|pancreas(3)|prostate(1)|skin(9)|stomach(1)|upper_aerodigestive_tract(9)|urinary_tract(2)	120			LUAD - Lung adenocarcinoma(50;0.0223)|Lung(238;0.0728)	GBM - Glioblastoma multiforme(112;0.00847)		AGCGTTGTGTCTGTCAGATTT	0.403000										HNSCC(30;0.082)			12	20					0.000978159	0.00100611	1	1	0
RP11-423O2.5	0	broad.mit.edu	37	1	142803480	142803480	+	RNA	SNP	T	T	C			TCGA-DJ-A4UR-01A-11D-A257-08	TCGA-DJ-A4UR-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96322657-d1a7-41c1-bdf0-24497e508a24	87d1c17c-cf0f-439f-bf79-1e3a6e092738	g.chr1:142803480T>C	ENST00000423385.1	-	0	1485																											GATTTTAATATTCTGTACATT	0.343000													5	62					0	0	1	0	0
FAM183B	340286	broad.mit.edu	37	7	38725408	38725408	+	Missense_Mutation	SNP	C	C	G			TCGA-DJ-A4UR-01A-11D-A257-08	TCGA-DJ-A4UR-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96322657-d1a7-41c1-bdf0-24497e508a24	87d1c17c-cf0f-439f-bf79-1e3a6e092738	g.chr7:38725408C>G	ENST00000409072.3	-	2	1132	c.198G>C	c.(196-198)agG>agC	p.R66S						family with sequence similarity 183, member B											endometrium(1)|lung(7)	8						GATTCAGAAACCTGGCGTCTG	0.542000													26	48					0	0	1	0	0
BPIFC	254240	broad.mit.edu	37	22	32841871	32841871	+	Missense_Mutation	SNP	C	C	T			TCGA-DJ-A4UR-01A-11D-A257-08	TCGA-DJ-A4UR-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96322657-d1a7-41c1-bdf0-24497e508a24	87d1c17c-cf0f-439f-bf79-1e3a6e092738	g.chr22:32841871C>T	ENST00000397452.1	-	5	597	c.487G>A	c.(487-489)Gcc>Acc	p.A163T	BPIFC_ENST00000300399.3_Missense_Mutation_p.A163T|BPIFC_ENST00000432451.2_5'UTR|BPIFC_ENST00000534972.1_Intron			Q8NFQ6	BPIL2_HUMAN	BPI fold containing family C	163						extracellular region	lipopolysaccharide binding|phospholipid binding										CTCAGTTGGGCGTAGCAATCT	0.522000													3	23					0	0	1	0	0
LPP	4026	broad.mit.edu	37	3	188426084	188426084	+	Silent	SNP	G	G	A	rs149905073	byFrequency	TCGA-DJ-A4UR-01A-11D-A257-08	TCGA-DJ-A4UR-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96322657-d1a7-41c1-bdf0-24497e508a24	87d1c17c-cf0f-439f-bf79-1e3a6e092738	g.chr3:188426084G>A	ENST00000312675.4	+	7	1389	c.1143G>A	c.(1141-1143)tcG>tcA	p.S381S	LPP_ENST00000543006.1_Silent_p.S381S|LPP_ENST00000471917.1_3'UTR|LPP_ENST00000448637.1_Silent_p.S381S	NM_001167672.1|NM_005578.3	NP_001161144.1|NP_005569.1	Q93052	LPP_HUMAN	LIM domain containing preferred translocation partner in lipoma	381					cell adhesion	cytoplasm|focal adhesion|nucleus	protein binding|zinc ion binding		HMGA2/LPP(161)	NS(1)|breast(1)|large_intestine(3)|lung(2)|ovary(1)|upper_aerodigestive_tract(2)	10	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)		TGGGGCCTTCGTCAGTTGCCC	0.507000			T	"""HMGA2, MLL, C12orf9"""	"""lipoma, leukemia"""								4	62					0	0	1	0	0
NRAS	4893	broad.mit.edu	37	1	115256529	115256529	+	Missense_Mutation	SNP	T	T	C	rs11554290		TCGA-DJ-A4UR-01A-11D-A257-08	TCGA-DJ-A4UR-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96322657-d1a7-41c1-bdf0-24497e508a24	87d1c17c-cf0f-439f-bf79-1e3a6e092738	g.chr1:115256529T>C	ENST00000369535.4	-	3	435	c.182A>G	c.(181-183)cAa>cGa	p.Q61R		NM_002524.4	NP_002515.1	P01111	RASN_HUMAN	neuroblastoma RAS viral (v-ras) oncogene homolog	61			Q -> K (in neuroblastoma cell).|Q -> R (in lung carcinoma cell and melanoma; dbSNP:rs11554290).		activation of MAPKK activity|axon guidance|blood coagulation|epidermal growth factor receptor signaling pathway|insulin receptor signaling pathway|leukocyte migration|nerve growth factor receptor signaling pathway|Ras protein signal transduction	Golgi membrane|plasma membrane	GTP binding|GTPase activity	p.Q61R(817)|p.Q61L(175)|p.Q61P(23)|p.Q61K(1)		NS(134)|adrenal_gland(9)|autonomic_ganglia(9)|biliary_tract(6)|bone(1)|breast(9)|central_nervous_system(10)|cervix(2)|endometrium(11)|eye(3)|haematopoietic_and_lymphoid_tissue(1115)|kidney(3)|large_intestine(105)|liver(10)|lung(42)|meninges(2)|ovary(7)|pancreas(5)|prostate(8)|skin(1144)|soft_tissue(37)|stomach(5)|testis(8)|thyroid(359)|upper_aerodigestive_tract(28)|urinary_tract(13)	3085	all_epithelial(7;5.11e-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)		GTACTCTTCTTGTCCAGCTGT	0.458000	Q61L(C3A_LIVER)|Q61L(HEPG2_LIVER)|Q61L(HL60_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61L(IPC298_SKIN)|Q61L(KMS21BM_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61L(MELJUSO_SKIN)|Q61L(MHHES1_BONE)|Q61L(MOLP8_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61L(OCIAML3_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61P(TF1_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61R(HT1197_URINARY_TRACT)|Q61R(KMS27_HAEMATOPOIETIC_AND_LYMPHOID_TISSUE)|Q61R(KU1919_URINARY_TRACT)|Q61R(NCIH2347_LUNG)|Q61R(ONS76_CENTRAL_NERVOUS_SYSTEM)|Q61R(SKMEL2_SKIN)|Q61R(SW1271_LUNG)|Q61R(TT2609C02_THYROID)	50	Mis		"""melanoma, MM, AML, thyroid"""				Noonan syndrome	TSP Lung(23;0.16)|Multiple Myeloma(1;<1E-6)			55	92					0	0	1	0	0
PCDHA1	0	broad.mit.edu	37	5	140166057	140166057	+	Missense_Mutation	SNP	C	C	T			TCGA-DJ-A4UR-01A-11D-A257-08	TCGA-DJ-A4UR-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96322657-d1a7-41c1-bdf0-24497e508a24	87d1c17c-cf0f-439f-bf79-1e3a6e092738	g.chr5:140166057C>T	ENST00000504120.2	+	1	182	c.182C>T	c.(181-183)cCt>cTt	p.P61L	PCDHA1_ENST00000378133.3_Missense_Mutation_p.P61L|PCDHA1_ENST00000394633.3_Missense_Mutation_p.P61L	NM_018900.2	NP_061723.1														breast(3)|endometrium(3)|kidney(2)|large_intestine(13)|lung(34)|prostate(3)|skin(4)|upper_aerodigestive_tract(5)|urinary_tract(3)	70			KIRC - Kidney renal clear cell carcinoma(527;0.00112)|Kidney(363;0.00191)			GAGCTGGTGCCTCGCCTGTTC	0.592000													15	84					0	0	1	0	0
NKG7	4818	broad.mit.edu	37	19	51875739	51875739	+	Missense_Mutation	SNP	C	C	T			TCGA-DJ-A4UR-01A-11D-A257-08	TCGA-DJ-A4UR-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96322657-d1a7-41c1-bdf0-24497e508a24	87d1c17c-cf0f-439f-bf79-1e3a6e092738	g.chr19:51875739C>T	ENST00000221978.5	-	1	230	c.51G>A	c.(49-51)atG>atA	p.M17I	NKG7_ENST00000600427.1_Missense_Mutation_p.M17I|NKG7_ENST00000595217.1_Missense_Mutation_p.M17I	NM_005601.3	NP_005592.1	Q16617	NKG7_HUMAN	natural killer cell group 7 sequence	17						integral to plasma membrane				central_nervous_system(1)|endometrium(1)|large_intestine(1)|lung(5)|ovary(1)|skin(1)	10		all_neural(266;0.0199)		GBM - Glioblastoma multiforme(134;0.000211)|OV - Ovarian serous cystadenocarcinoma(262;0.00979)		TCAGGCAGAACATCAGGCCCA	0.622000													26	53					0	0	1	0	0
NDRG4	65009	broad.mit.edu	37	16	58542903	58542903	+	Missense_Mutation	SNP	C	C	A			TCGA-DJ-A4UR-01A-11D-A257-08	TCGA-DJ-A4UR-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96322657-d1a7-41c1-bdf0-24497e508a24	87d1c17c-cf0f-439f-bf79-1e3a6e092738	g.chr16:58542903C>A	ENST00000394282.4	+	13	1330	c.923C>A	c.(922-924)aCc>aAc	p.T308N	NDRG4_ENST00000562999.1_Missense_Mutation_p.T256N|NDRG4_ENST00000566192.1_Missense_Mutation_p.T256N|NDRG4_ENST00000570248.1_Missense_Mutation_p.T256N|NDRG4_ENST00000569923.1_Missense_Mutation_p.T201N|NDRG4_ENST00000394279.2_Missense_Mutation_p.T288N|NDRG4_ENST00000568640.1_Missense_Mutation_p.T274N|NDRG4_ENST00000563799.1_Missense_Mutation_p.T274N|NDRG4_ENST00000258187.5_Missense_Mutation_p.T288N|NDRG4_ENST00000356752.4_Missense_Mutation_p.T286N	NM_001130487.1	NP_001123959.1	Q9ULP0	NDRG4_HUMAN	NDRG family member 4	256					cell differentiation|cell growth|multicellular organismal development|response to stress	cytoplasm				breast(1)|endometrium(3)|large_intestine(1)|lung(3)|ovary(1)|skin(1)|urinary_tract(1)	11						ACCACTACGACCTTCCTGAAG	0.632000													3	31					0.115264	0.115264	1	1	0
LCN15	389812	broad.mit.edu	37	9	139658396	139658396	+	Silent	SNP	G	G	A			TCGA-DJ-A4UR-01A-11D-A257-08	TCGA-DJ-A4UR-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96322657-d1a7-41c1-bdf0-24497e508a24	87d1c17c-cf0f-439f-bf79-1e3a6e092738	g.chr9:139658396G>A	ENST00000316144.5	-	2	186	c.162C>T	c.(160-162)gaC>gaT	p.D54D	LCN15_ENST00000482511.1_5'UTR	NM_203347.1	NP_976222.1	Q6UWW0	LCN15_HUMAN	lipocalin 15	54					lipid metabolic process	extracellular region	binding|transporter activity			endometrium(1)|lung(1)	2						TGGACAGGTGGTCCTTCTTGC	0.642000													9	105					0	0	1	0	0
TUBB8P7	0	broad.mit.edu	37	16	90162186	90162186	+	RNA	SNP	T	T	C	rs4299156		TCGA-DJ-A4UR-01A-11D-A257-08	TCGA-DJ-A4UR-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96322657-d1a7-41c1-bdf0-24497e508a24	87d1c17c-cf0f-439f-bf79-1e3a6e092738	g.chr16:90162186T>C	ENST00000567960.1	+	0	922				TUBB8P7_ENST00000564451.1_RNA																							ACCCCCGTCATGGCCGCTACC	0.562000													5	106					0	0	1	0	0
ANO7	50636	broad.mit.edu	37	2	242135327	242135327	+	Missense_Mutation	SNP	G	G	A			TCGA-DJ-A4UR-01A-11D-A257-08	TCGA-DJ-A4UR-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96322657-d1a7-41c1-bdf0-24497e508a24	87d1c17c-cf0f-439f-bf79-1e3a6e092738	g.chr2:242135327G>A	ENST00000402530.3	+	4	638	c.535G>A	c.(535-537)Gca>Aca	p.A179T	ANO7_ENST00000274979.8_Intron|ANO7_ENST00000402430.3_Intron	NM_001001666.3	NP_001001666.1	Q6IWH7	ANO7_HUMAN	anoctamin 7	0						cell junction|chloride channel complex|cytosol	chloride channel activity			NS(1)|central_nervous_system(1)|endometrium(3)|large_intestine(5)|lung(14)|pancreas(2)|prostate(1)|skin(3)|urinary_tract(2)	32						TGACCTTGCCGCATGAGGCCT	0.632000													3	36					0	0	1	0	0
PTPRA	0	broad.mit.edu	37	20	3016532	3016532	+	Missense_Mutation	SNP	G	G	A			TCGA-DJ-A4UR-01A-11D-A257-08	TCGA-DJ-A4UR-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96322657-d1a7-41c1-bdf0-24497e508a24	87d1c17c-cf0f-439f-bf79-1e3a6e092738	g.chr20:3016532G>A	ENST00000216877.6	+	21	2516	c.2116G>A	c.(2116-2118)Gcc>Acc	p.A706T	PTPRA_ENST00000399903.2_Missense_Mutation_p.A715T|PTPRA_ENST00000425918.2_Missense_Mutation_p.A726T|PTPRA_ENST00000380393.3_Missense_Mutation_p.A715T|PTPRA_ENST00000356147.3_Missense_Mutation_p.A706T|PTPRA_ENST00000318266.5_Missense_Mutation_p.A706T|PTPRA_ENST00000358719.4_Missense_Mutation_p.A571T	NM_080840.2	NP_543030.1	P18433	PTPRA_HUMAN	protein tyrosine phosphatase, receptor type, A	715	Tyrosine-protein phosphatase 2.				axon guidance|protein phosphorylation	integral to plasma membrane	transmembrane receptor protein tyrosine phosphatase activity			NS(1)|breast(1)|endometrium(3)|large_intestine(3)|lung(5)|skin(1)|stomach(1)|upper_aerodigestive_tract(1)|urinary_tract(1)	17						CATCATCGCCGCCGTGCAGAA	0.602000													40	58					0	0	1	0	0
FYCO1	79443	broad.mit.edu	37	3	46008279	46008279	+	Silent	SNP	C	C	A			TCGA-DJ-A4UR-01A-11D-A257-08	TCGA-DJ-A4UR-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96322657-d1a7-41c1-bdf0-24497e508a24	87d1c17c-cf0f-439f-bf79-1e3a6e092738	g.chr3:46008279C>A	ENST00000296137.2	-	8	2752	c.2547G>T	c.(2545-2547)tcG>tcT	p.S849S	FYCO1_ENST00000535325.1_Silent_p.S849S	NM_024513.3	NP_078789.2	Q9BQS8	FYCO1_HUMAN	FYVE and coiled-coil domain containing 1	849					transport	integral to membrane	metal ion binding|protein binding			NS(4)|breast(3)|central_nervous_system(1)|endometrium(11)|kidney(2)|large_intestine(9)|lung(17)|prostate(4)|skin(2)|upper_aerodigestive_tract(1)	54				BRCA - Breast invasive adenocarcinoma(193;0.00147)|KIRC - Kidney renal clear cell carcinoma(197;0.0272)|Kidney(197;0.0323)		CTTCACGCTCCGAGCATTGCA	0.627000													8	27					0.000157383	0.000166641	1	1	0
MALAT1	0	broad.mit.edu	37	11	65272905	65272905	+	RNA	SNP	T	T	C			TCGA-DJ-A4UR-01A-11D-A257-08	TCGA-DJ-A4UR-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96322657-d1a7-41c1-bdf0-24497e508a24	87d1c17c-cf0f-439f-bf79-1e3a6e092738	g.chr11:65272905T>C	ENST00000534336.1	+	0	7673					NR_002819.2																						CTCTTAATAATAAAGCCCAAA	0.463000													33	45					0	0	1	0	0
AC096574.4	0	broad.mit.edu	37	2	239141505	239141505	+	RNA	SNP	A	A	G	rs148845540		TCGA-DJ-A4UR-01A-11D-A257-08	TCGA-DJ-A4UR-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96322657-d1a7-41c1-bdf0-24497e508a24	87d1c17c-cf0f-439f-bf79-1e3a6e092738	g.chr2:239141505A>G	ENST00000456601.1	+	0	906																											TTTTGGTGCAACAATTGGTTG	0.498000													4	44					0	0	1	0	0
OR4K5	79317	broad.mit.edu	37	14	20388907	20388907	+	Missense_Mutation	SNP	A	A	T			TCGA-DJ-A4UR-01A-11D-A257-08	TCGA-DJ-A4UR-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96322657-d1a7-41c1-bdf0-24497e508a24	87d1c17c-cf0f-439f-bf79-1e3a6e092738	g.chr14:20388907A>T	ENST00000315915.4	+	1	167	c.142A>T	c.(142-144)Aca>Tca	p.T48S		NM_001005483.1	NP_001005483.1	Q8NGD3	OR4K5_HUMAN	olfactory receptor, family 4, subfamily K, member 5	48					sensory perception of smell	integral to membrane|plasma membrane	olfactory receptor activity			central_nervous_system(1)|endometrium(4)|kidney(2)|large_intestine(6)|liver(1)|lung(27)|ovary(1)|skin(3)|stomach(1)|urinary_tract(1)	47	all_cancers(95;0.00108)		Epithelial(56;9.96e-07)|all cancers(55;2.95e-06)	GBM - Glioblastoma multiforme(265;0.00327)		CATTATCCTCACAGTGACTTC	0.408000													10	258					0	0	1	0	0
KRTAP4-11	653240	broad.mit.edu	37	17	39274518	39274518	+	Missense_Mutation	SNP	C	C	T	rs9897031	by1000genomes	TCGA-DJ-A4UR-01A-11D-A257-08	TCGA-DJ-A4UR-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96322657-d1a7-41c1-bdf0-24497e508a24	87d1c17c-cf0f-439f-bf79-1e3a6e092738	g.chr17:39274518C>T	ENST00000391413.2	-	1	88	c.50G>A	c.(49-51)cGa>cAa	p.R17Q		NM_033059.3	NP_149048.2	Q9BYQ6	KR411_HUMAN	keratin associated protein 4-11	17	27 X 5 AA repeats of C-C-[GIKRQVHEL]- [SPTR]-[STVQRMC].			R -> Q (in Ref. 1; CAC27583 and 3; AAI26132/AAI30563).		keratin filament				endometrium(12)|haematopoietic_and_lymphoid_tissue(1)|kidney(6)|lung(8)|prostate(5)|skin(1)	33		Breast(137;0.000496)	STAD - Stomach adenocarcinoma(17;0.000371)			GCAGAGGTCTCGGCCACAGCC	0.592000													3	33					0	0	1	0	0
TMEM260	54916	broad.mit.edu	37	14	57088388	57088388	+	Silent	SNP	T	T	C			TCGA-DJ-A4UR-01A-11D-A257-08	TCGA-DJ-A4UR-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96322657-d1a7-41c1-bdf0-24497e508a24	87d1c17c-cf0f-439f-bf79-1e3a6e092738	g.chr14:57088388T>C	ENST00000261556.6	+	11	1488	c.1366T>C	c.(1366-1368)Ttg>Ctg	p.L456L	TMEM260_ENST00000538838.1_Intron|TMEM260_ENST00000536419.1_Intron	NM_017799.3	NP_060269.3			transmembrane protein 260																		CTGTGAGGGGTTGAGGCCTGA	0.368000													10	33					0	0	1	0	0
SIGLEC16	400709	broad.mit.edu	37	19	50473221	50473221	+	RNA	SNP	T	T	C	rs117072442	by1000genomes	TCGA-DJ-A4UR-01A-11D-A257-08	TCGA-DJ-A4UR-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96322657-d1a7-41c1-bdf0-24497e508a24	87d1c17c-cf0f-439f-bf79-1e3a6e092738	g.chr19:50473221T>C	ENST00000602139.1	+	0	222									sialic acid binding Ig-like lectin 16 (gene/pseudogene)									p.W65R(3)		endometrium(2)|kidney(2)|lung(6)	10						GTTCAAAGGATGGACCAGCCC	0.602000													5	33					0	0	1	0	0
COL8A2	1296	broad.mit.edu	37	1	36563947	36563947	+	Frame_Shift_Del	DEL	C	C	-			TCGA-DJ-A4UR-01A-11D-A257-08	TCGA-DJ-A4UR-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96322657-d1a7-41c1-bdf0-24497e508a24	87d1c17c-cf0f-439f-bf79-1e3a6e092738	g.chr1:36563947delC	ENST00000397799.1	-	4	1559	c.1335delG	c.(1333-1335)ggfs	p.G445fs	COL8A2_ENST00000481785.1_Frame_Shift_Del_p.G380fs|COL8A2_ENST00000303143.4_Frame_Shift_Del_p.G445fs			P25067	CO8A2_HUMAN	collagen, type VIII, alpha 2	445	Triple-helical region.				angiogenesis|cell-cell adhesion|extracellular matrix organization	basement membrane|collagen	extracellular matrix structural constituent|protein binding, bridging			NS(2)|central_nervous_system(2)|haematopoietic_and_lymphoid_tissue(1)|kidney(4)|large_intestine(1)|lung(4)|prostate(1)|skin(1)|upper_aerodigestive_tract(1)	17		Myeloproliferative disorder(586;0.0255)|all_neural(195;0.164)				CACCTTTCTGCCCCAGGGCTC	0.692													2	4	---	---	---	---					
USP2-AS1	0	broad.mit.edu	37	11	119274142	119274142	+	RNA	DEL	T	T	-	rs66493459		TCGA-DJ-A4UR-01A-11D-A257-08	TCGA-DJ-A4UR-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96322657-d1a7-41c1-bdf0-24497e508a24	87d1c17c-cf0f-439f-bf79-1e3a6e092738	g.chr11:119274142delT	ENST00000498979.2	+	0	273				USP2-AS1_ENST00000578923.1_RNA|USP2-AS1_ENST00000500970.1_RNA|USP2-AS1_ENST00000577297.1_RNA|USP2-AS1_ENST00000530002.1_RNA	NR_034160.1																						AGTGTTTAAGttttttttttt	0.343													3	5	---	---	---	---					
HAGHL	84264	broad.mit.edu	37	16	778954	778954	+	Frame_Shift_Del	DEL	T	T	-			TCGA-DJ-A4UR-01A-11D-A257-08	TCGA-DJ-A4UR-10A-01D-A25A-08								Untested	Somatic	Phase_I	WXS	none			Illumina GAIIx	96322657-d1a7-41c1-bdf0-24497e508a24	87d1c17c-cf0f-439f-bf79-1e3a6e092738	g.chr16:778954delT	ENST00000341413.4	+	7	940	c.659delT	c.(658-660)ggfs	p.V220fs	HAGHL_ENST00000564545.1_3'UTR|HAGHL_ENST00000564537.1_3'UTR|HAGHL_ENST00000389703.3_Intron|HAGHL_ENST00000549114.1_3'UTR|HAGHL_ENST00000561546.1_Intron			Q6PII5	HAGHL_HUMAN	hydroxyacylglutathione hydrolase-like	220							hydrolase activity|metal ion binding			lung(3)	3		Hepatocellular(780;0.00335)				GGCTTCGGGGTGGGGGGGGCT	0.672													2	4	---	---	---	---